Multiple sequence alignment - TraesCS6B01G198900

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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 TraesCS6B01G198900 chr6B 100.000 4127 0 0 1 4127 238153605 238157731 0.000000e+00 7622.0
1 TraesCS6B01G198900 chr6B 94.783 115 6 0 4011 4125 43513405 43513519 3.280000e-41 180.0
2 TraesCS6B01G198900 chr6B 88.618 123 9 5 3171 3293 86494310 86494427 1.200000e-30 145.0
3 TraesCS6B01G198900 chr6B 100.000 47 0 0 1 47 238144199 238144245 2.040000e-13 87.9
4 TraesCS6B01G198900 chr6D 93.420 3146 107 40 130 3209 138894197 138897308 0.000000e+00 4571.0
5 TraesCS6B01G198900 chr6D 94.695 377 9 2 3290 3655 138897305 138897681 3.580000e-160 575.0
6 TraesCS6B01G198900 chr6D 95.965 347 13 1 3666 4012 138897656 138898001 2.790000e-156 562.0
7 TraesCS6B01G198900 chr6D 92.908 141 3 4 1 134 138894020 138894160 9.050000e-47 198.0
8 TraesCS6B01G198900 chr6D 98.889 90 1 0 3204 3293 459173504 459173415 1.190000e-35 161.0
9 TraesCS6B01G198900 chr6A 92.414 1806 102 17 1412 3209 181509142 181510920 0.000000e+00 2543.0
10 TraesCS6B01G198900 chr6A 92.815 1517 54 18 130 1616 181507648 181509139 0.000000e+00 2146.0
11 TraesCS6B01G198900 chr6A 96.067 356 12 2 3290 3644 181510917 181511271 2.770000e-161 579.0
12 TraesCS6B01G198900 chr6A 95.389 347 15 1 3666 4012 181511258 181511603 6.030000e-153 551.0
13 TraesCS6B01G198900 chr6A 96.396 111 4 0 24 134 181507501 181507611 2.530000e-42 183.0
14 TraesCS6B01G198900 chr3D 94.068 118 7 0 4008 4125 313286873 313286990 3.280000e-41 180.0
15 TraesCS6B01G198900 chr3D 96.809 94 1 2 3201 3293 56336872 56336964 5.520000e-34 156.0
16 TraesCS6B01G198900 chr5B 93.966 116 7 0 4010 4125 114693758 114693873 4.240000e-40 176.0
17 TraesCS6B01G198900 chr5B 93.913 115 7 0 4011 4125 299604642 299604528 1.520000e-39 174.0
18 TraesCS6B01G198900 chr5B 92.000 125 9 1 4001 4125 476730320 476730197 1.520000e-39 174.0
19 TraesCS6B01G198900 chrUn 91.270 126 9 2 4001 4125 477687587 477687463 1.970000e-38 171.0
20 TraesCS6B01G198900 chr4B 91.200 125 11 0 4001 4125 398529340 398529216 1.970000e-38 171.0
21 TraesCS6B01G198900 chr4A 91.270 126 9 2 4001 4125 543398191 543398315 1.970000e-38 171.0
22 TraesCS6B01G198900 chr4A 98.876 89 1 0 3208 3296 38740530 38740442 4.270000e-35 159.0
23 TraesCS6B01G198900 chr1A 91.270 126 9 2 4001 4125 444433643 444433519 1.970000e-38 171.0
24 TraesCS6B01G198900 chr7D 96.078 102 1 3 3193 3293 379826737 379826638 3.300000e-36 163.0
25 TraesCS6B01G198900 chr3A 97.872 94 2 0 3207 3300 602764859 602764766 3.300000e-36 163.0
26 TraesCS6B01G198900 chr1B 100.000 88 0 0 3208 3295 297119616 297119703 3.300000e-36 163.0
27 TraesCS6B01G198900 chr1B 98.901 91 0 1 3207 3296 332837890 332837980 1.190000e-35 161.0
28 TraesCS6B01G198900 chr5D 94.949 99 5 0 3195 3293 253048763 253048861 5.520000e-34 156.0


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 TraesCS6B01G198900 chr6B 238153605 238157731 4126 False 7622.0 7622 100.0000 1 4127 1 chr6B.!!$F4 4126
1 TraesCS6B01G198900 chr6D 138894020 138898001 3981 False 1476.5 4571 94.2470 1 4012 4 chr6D.!!$F1 4011
2 TraesCS6B01G198900 chr6A 181507501 181511603 4102 False 1200.4 2543 94.6162 24 4012 5 chr6A.!!$F1 3988

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
389 450 0.674895 AGCGACAGTTGGGATTCTGC 60.675 55.000 0.0 0.0 35.37 4.26 F
490 555 1.275291 TGTCCCCATTCGAGTTGTCTC 59.725 52.381 0.0 0.0 37.35 3.36 F
1471 1582 1.341089 TGCCTACCTGTCATCGAGAGT 60.341 52.381 0.0 0.0 0.00 3.24 F
1472 1583 1.751924 GCCTACCTGTCATCGAGAGTT 59.248 52.381 0.0 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2343 1.133025 CGCTTAAAGCTCACCAATGGG 59.867 52.381 3.55 0.0 39.6 4.00 R
2421 2743 1.872952 CGATGCTGTGAACTGTCCAAA 59.127 47.619 0.00 0.0 0.0 3.28 R
2566 2888 1.885233 TCAAAATTGGCGAGCACATCA 59.115 42.857 0.00 0.0 0.0 3.07 R
3307 3629 2.234414 GGCCACCATGAAATCACATTGT 59.766 45.455 0.00 0.0 0.0 2.71 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
159 208 3.634910 CCTTTCTTCCTTTCCGTGGAAAA 59.365 43.478 14.56 0.00 42.61 2.29
299 357 0.963962 GGGACAACTCCGTCTACACA 59.036 55.000 0.00 0.00 37.46 3.72
368 429 2.184167 CGTGTTCGGGTTGTTGGCT 61.184 57.895 0.00 0.00 0.00 4.75
389 450 0.674895 AGCGACAGTTGGGATTCTGC 60.675 55.000 0.00 0.00 35.37 4.26
490 555 1.275291 TGTCCCCATTCGAGTTGTCTC 59.725 52.381 0.00 0.00 37.35 3.36
552 617 4.712122 TGGGCGAAATTCCAAGATTTAC 57.288 40.909 0.00 0.00 29.75 2.01
586 651 5.830457 TGAATGTTTGTCCATTCTTGTACCA 59.170 36.000 13.28 0.00 47.00 3.25
631 700 7.346751 TGATACTGATGCATGTGTTCTACTA 57.653 36.000 2.46 0.00 0.00 1.82
646 715 2.835764 TCTACTACCGGAAATGGCACTT 59.164 45.455 9.46 0.00 0.00 3.16
678 747 3.004944 TGCTTTATGTGGTTTCGTTTCCC 59.995 43.478 0.00 0.00 0.00 3.97
806 891 3.997021 TGAAACTCGGATTCTGCTTTCTC 59.003 43.478 12.80 0.00 0.00 2.87
827 912 7.208225 TCTCGATTCATGACAAGGTAGATAG 57.792 40.000 0.00 0.00 0.00 2.08
1125 1236 2.425143 TCCATGAGTTCAATGGAGCC 57.575 50.000 0.98 0.00 39.36 4.70
1458 1569 3.945921 GACCCTTTTCTGTTATGCCTACC 59.054 47.826 0.00 0.00 0.00 3.18
1459 1570 3.591977 ACCCTTTTCTGTTATGCCTACCT 59.408 43.478 0.00 0.00 0.00 3.08
1460 1571 3.947834 CCCTTTTCTGTTATGCCTACCTG 59.052 47.826 0.00 0.00 0.00 4.00
1461 1572 4.567747 CCCTTTTCTGTTATGCCTACCTGT 60.568 45.833 0.00 0.00 0.00 4.00
1462 1573 4.636206 CCTTTTCTGTTATGCCTACCTGTC 59.364 45.833 0.00 0.00 0.00 3.51
1463 1574 4.901197 TTTCTGTTATGCCTACCTGTCA 57.099 40.909 0.00 0.00 0.00 3.58
1464 1575 5.435686 TTTCTGTTATGCCTACCTGTCAT 57.564 39.130 0.00 0.00 0.00 3.06
1465 1576 4.672587 TCTGTTATGCCTACCTGTCATC 57.327 45.455 0.00 0.00 0.00 2.92
1466 1577 3.068165 TCTGTTATGCCTACCTGTCATCG 59.932 47.826 0.00 0.00 0.00 3.84
1467 1578 3.028130 TGTTATGCCTACCTGTCATCGA 58.972 45.455 0.00 0.00 0.00 3.59
1468 1579 3.068165 TGTTATGCCTACCTGTCATCGAG 59.932 47.826 0.00 0.00 0.00 4.04
1469 1580 2.073252 ATGCCTACCTGTCATCGAGA 57.927 50.000 0.00 0.00 0.00 4.04
1470 1581 1.393603 TGCCTACCTGTCATCGAGAG 58.606 55.000 0.00 0.00 0.00 3.20
1471 1582 1.341089 TGCCTACCTGTCATCGAGAGT 60.341 52.381 0.00 0.00 0.00 3.24
1472 1583 1.751924 GCCTACCTGTCATCGAGAGTT 59.248 52.381 0.00 0.00 0.00 3.01
1473 1584 2.480416 GCCTACCTGTCATCGAGAGTTG 60.480 54.545 0.00 0.00 0.00 3.16
1474 1585 2.755655 CCTACCTGTCATCGAGAGTTGT 59.244 50.000 0.00 0.00 32.73 3.32
1475 1586 3.181495 CCTACCTGTCATCGAGAGTTGTC 60.181 52.174 0.00 0.00 32.73 3.18
1476 1587 2.239400 ACCTGTCATCGAGAGTTGTCA 58.761 47.619 0.00 0.00 32.73 3.58
1477 1588 2.828520 ACCTGTCATCGAGAGTTGTCAT 59.171 45.455 0.00 0.00 30.73 3.06
1478 1589 3.185330 CCTGTCATCGAGAGTTGTCATG 58.815 50.000 0.00 0.00 30.73 3.07
1491 1612 7.474398 AGAGTTGTCATGTTGAATATCGATG 57.526 36.000 8.54 0.00 0.00 3.84
1563 1684 9.471702 CATAATATGGAATCCTTGGAAGCTAAT 57.528 33.333 0.00 0.00 0.00 1.73
1617 1933 7.277981 GTGAACACTGATACAATTCTTCGGTAT 59.722 37.037 0.00 0.00 0.00 2.73
1625 1941 9.661563 TGATACAATTCTTCGGTATAACACTTT 57.338 29.630 0.00 0.00 0.00 2.66
1634 1951 6.548441 TCGGTATAACACTTTTTGGTTCAG 57.452 37.500 0.00 0.00 0.00 3.02
1676 1994 7.835682 ACATAGATCTTTTCATTGATGTTGGGA 59.164 33.333 0.00 0.00 0.00 4.37
1677 1995 6.521151 AGATCTTTTCATTGATGTTGGGAC 57.479 37.500 0.00 0.00 0.00 4.46
1701 2019 6.057321 TCCGTTTCCCATAATACTCAAGTT 57.943 37.500 0.00 0.00 0.00 2.66
1777 2095 7.124147 TGTCTGTCCAAGTGATGTATTAGATGA 59.876 37.037 0.00 0.00 0.00 2.92
1780 2098 7.795047 TGTCCAAGTGATGTATTAGATGACAT 58.205 34.615 0.00 0.00 38.99 3.06
1799 2117 6.724263 TGACATATCGAAATAAGCGCAAAAT 58.276 32.000 11.47 0.00 0.00 1.82
1829 2148 9.936759 CTCTCTCTTCTTTTAGGAAATAGTTGT 57.063 33.333 0.00 0.00 0.00 3.32
1836 2155 8.990163 TCTTTTAGGAAATAGTTGTGTCCTTT 57.010 30.769 0.00 0.00 40.93 3.11
1883 2202 9.461312 TCAAACTATTATTGATACTGCCTGTTT 57.539 29.630 0.00 0.00 32.10 2.83
1972 2292 2.325484 GGGTGGTTTGGTCCTCATTTT 58.675 47.619 0.00 0.00 0.00 1.82
2352 2674 2.158682 TGCCACTACAATGGTGTGTCTT 60.159 45.455 7.01 0.00 42.28 3.01
2446 2768 4.122776 GGACAGTTCACAGCATCGATAAT 58.877 43.478 0.00 0.00 0.00 1.28
2494 2816 2.918131 GCCAATTGTGCGAACTTCACTC 60.918 50.000 4.43 0.00 35.58 3.51
2521 2843 4.843147 TCTGTTCAAGTGTTTATGTTGCG 58.157 39.130 0.00 0.00 0.00 4.85
2928 3250 1.677576 CTGTTTGTGTGATGTGTGCCT 59.322 47.619 0.00 0.00 0.00 4.75
2957 3279 7.778853 TGTTTGTAGGTATCCTTTTGGTTTACA 59.221 33.333 0.00 0.00 41.38 2.41
2961 3283 7.608761 TGTAGGTATCCTTTTGGTTTACATGTC 59.391 37.037 0.00 0.00 41.38 3.06
3009 3331 5.832539 TCTTCAGGGATTCTTATGGGATC 57.167 43.478 0.00 0.00 0.00 3.36
3143 3465 0.031716 TAGTCTGCTCCATGCCTCCT 60.032 55.000 0.00 0.00 42.00 3.69
3213 3535 9.478768 GATTATTGAGCTTTAGTTAGTACTCCC 57.521 37.037 0.00 0.00 35.78 4.30
3214 3536 8.605325 TTATTGAGCTTTAGTTAGTACTCCCT 57.395 34.615 0.00 0.00 35.78 4.20
3215 3537 6.527057 TTGAGCTTTAGTTAGTACTCCCTC 57.473 41.667 0.00 0.00 35.78 4.30
3216 3538 4.954826 TGAGCTTTAGTTAGTACTCCCTCC 59.045 45.833 0.00 0.00 35.78 4.30
3217 3539 3.952967 AGCTTTAGTTAGTACTCCCTCCG 59.047 47.826 0.00 0.00 35.78 4.63
3218 3540 3.698539 GCTTTAGTTAGTACTCCCTCCGT 59.301 47.826 0.00 0.00 35.78 4.69
3219 3541 4.159321 GCTTTAGTTAGTACTCCCTCCGTT 59.841 45.833 0.00 0.00 35.78 4.44
3220 3542 5.678361 GCTTTAGTTAGTACTCCCTCCGTTC 60.678 48.000 0.00 0.00 35.78 3.95
3221 3543 2.732763 AGTTAGTACTCCCTCCGTTCC 58.267 52.381 0.00 0.00 0.00 3.62
3222 3544 2.042162 AGTTAGTACTCCCTCCGTTCCA 59.958 50.000 0.00 0.00 0.00 3.53
3223 3545 2.827921 GTTAGTACTCCCTCCGTTCCAA 59.172 50.000 0.00 0.00 0.00 3.53
3224 3546 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
3225 3547 2.332117 AGTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
3226 3548 2.910977 AGTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
3227 3549 4.098894 AGTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
3228 3550 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
3229 3551 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
3230 3552 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
3231 3553 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
3232 3554 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
3233 3555 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
3234 3556 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
3235 3557 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
3236 3558 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
3237 3559 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
3238 3560 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
3239 3561 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
3240 3562 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
3241 3563 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
3242 3564 6.588719 TCCAAAATAGATGACCCAACTTTG 57.411 37.500 0.00 0.00 0.00 2.77
3243 3565 6.074648 TCCAAAATAGATGACCCAACTTTGT 58.925 36.000 0.00 0.00 0.00 2.83
3244 3566 7.235079 TCCAAAATAGATGACCCAACTTTGTA 58.765 34.615 0.00 0.00 0.00 2.41
3245 3567 7.175990 TCCAAAATAGATGACCCAACTTTGTAC 59.824 37.037 0.00 0.00 0.00 2.90
3246 3568 7.176690 CCAAAATAGATGACCCAACTTTGTACT 59.823 37.037 0.00 0.00 0.00 2.73
3247 3569 9.226606 CAAAATAGATGACCCAACTTTGTACTA 57.773 33.333 0.00 0.00 0.00 1.82
3248 3570 9.802039 AAAATAGATGACCCAACTTTGTACTAA 57.198 29.630 0.00 0.00 0.00 2.24
3249 3571 9.802039 AAATAGATGACCCAACTTTGTACTAAA 57.198 29.630 0.00 0.00 0.00 1.85
3250 3572 9.449719 AATAGATGACCCAACTTTGTACTAAAG 57.550 33.333 13.08 13.08 0.00 1.85
3251 3573 6.838382 AGATGACCCAACTTTGTACTAAAGT 58.162 36.000 14.04 14.04 41.82 2.66
3253 3575 8.434392 AGATGACCCAACTTTGTACTAAAGTTA 58.566 33.333 23.56 14.79 45.57 2.24
3254 3576 8.617290 ATGACCCAACTTTGTACTAAAGTTAG 57.383 34.615 23.56 20.79 45.57 2.34
3255 3577 7.567458 TGACCCAACTTTGTACTAAAGTTAGT 58.433 34.615 23.56 22.58 45.57 2.24
3256 3578 8.703743 TGACCCAACTTTGTACTAAAGTTAGTA 58.296 33.333 23.56 6.81 45.57 1.82
3257 3579 9.716531 GACCCAACTTTGTACTAAAGTTAGTAT 57.283 33.333 23.56 15.20 45.57 2.12
3279 3601 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
3280 3602 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
3281 3603 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
3282 3604 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
3283 3605 5.640147 AGTTGGGTCATCTATTTTGGAACA 58.360 37.500 0.00 0.00 0.00 3.18
3284 3606 5.711976 AGTTGGGTCATCTATTTTGGAACAG 59.288 40.000 0.00 0.00 42.39 3.16
3285 3607 5.512942 TGGGTCATCTATTTTGGAACAGA 57.487 39.130 0.00 0.00 42.39 3.41
3286 3608 5.500234 TGGGTCATCTATTTTGGAACAGAG 58.500 41.667 0.00 0.00 42.39 3.35
3287 3609 4.884164 GGGTCATCTATTTTGGAACAGAGG 59.116 45.833 0.00 0.00 42.39 3.69
3288 3610 4.884164 GGTCATCTATTTTGGAACAGAGGG 59.116 45.833 0.00 0.00 42.39 4.30
3289 3611 5.339200 GGTCATCTATTTTGGAACAGAGGGA 60.339 44.000 0.00 0.00 42.39 4.20
3290 3612 5.819901 GTCATCTATTTTGGAACAGAGGGAG 59.180 44.000 0.00 0.00 42.39 4.30
3291 3613 5.488919 TCATCTATTTTGGAACAGAGGGAGT 59.511 40.000 0.00 0.00 42.39 3.85
3299 3621 4.037222 TGGAACAGAGGGAGTATATTGCA 58.963 43.478 0.00 0.00 0.00 4.08
3307 3629 5.189736 AGAGGGAGTATATTGCACAGTCAAA 59.810 40.000 0.00 0.00 0.00 2.69
3495 3817 9.780186 TTTTTATTTACCTTTTGGGGTTATGTG 57.220 29.630 0.00 0.00 46.08 3.21
3574 3896 7.502561 GCAATGAACTTAACCATATTCTAGGGT 59.497 37.037 0.00 0.00 46.24 4.34
3644 3976 0.596082 CCCGTGAAAAAGGCGAACAT 59.404 50.000 0.00 0.00 0.00 2.71
3645 3977 1.665735 CCCGTGAAAAAGGCGAACATG 60.666 52.381 0.00 0.00 0.00 3.21
3646 3978 1.265635 CCGTGAAAAAGGCGAACATGA 59.734 47.619 0.00 0.00 0.00 3.07
3647 3979 2.574322 CGTGAAAAAGGCGAACATGAG 58.426 47.619 0.00 0.00 0.00 2.90
3648 3980 2.032030 CGTGAAAAAGGCGAACATGAGT 60.032 45.455 0.00 0.00 0.00 3.41
3649 3981 3.548014 CGTGAAAAAGGCGAACATGAGTT 60.548 43.478 0.00 0.00 41.64 3.01
3650 3982 4.359706 GTGAAAAAGGCGAACATGAGTTT 58.640 39.130 0.00 0.00 38.30 2.66
3651 3983 4.441087 GTGAAAAAGGCGAACATGAGTTTC 59.559 41.667 0.00 0.00 38.30 2.78
3652 3984 4.097135 TGAAAAAGGCGAACATGAGTTTCA 59.903 37.500 0.00 0.94 38.30 2.69
3653 3985 4.647424 AAAAGGCGAACATGAGTTTCAA 57.353 36.364 0.00 0.00 38.30 2.69
3654 3986 4.647424 AAAGGCGAACATGAGTTTCAAA 57.353 36.364 0.00 0.00 38.30 2.69
3655 3987 4.647424 AAGGCGAACATGAGTTTCAAAA 57.353 36.364 0.00 0.00 38.30 2.44
3656 3988 4.647424 AGGCGAACATGAGTTTCAAAAA 57.353 36.364 0.00 0.00 38.30 1.94
3678 4010 5.576447 AAAAGAGAAGAAAAAGGCGAACA 57.424 34.783 0.00 0.00 0.00 3.18
3706 4038 2.629051 GCAAACCTAGGCACGACTATT 58.371 47.619 9.30 0.00 0.00 1.73
3758 4090 0.389757 GGGTCAGGATCTTCTACGGC 59.610 60.000 0.00 0.00 0.00 5.68
3888 4220 7.122650 CCACACTTCACACCCTTAATTTCATAT 59.877 37.037 0.00 0.00 0.00 1.78
4012 4344 8.192774 GCCAAAAGGTTTACCCTAATAACATAC 58.807 37.037 0.00 0.00 45.47 2.39
4013 4345 9.470399 CCAAAAGGTTTACCCTAATAACATACT 57.530 33.333 0.00 0.00 45.47 2.12
4015 4347 9.690913 AAAAGGTTTACCCTAATAACATACTCC 57.309 33.333 0.00 0.00 45.47 3.85
4016 4348 7.384524 AGGTTTACCCTAATAACATACTCCC 57.615 40.000 0.00 0.00 43.87 4.30
4017 4349 7.144430 AGGTTTACCCTAATAACATACTCCCT 58.856 38.462 0.00 0.00 43.87 4.20
4018 4350 7.291885 AGGTTTACCCTAATAACATACTCCCTC 59.708 40.741 0.00 0.00 43.87 4.30
4019 4351 7.448420 GTTTACCCTAATAACATACTCCCTCC 58.552 42.308 0.00 0.00 0.00 4.30
4020 4352 4.158015 ACCCTAATAACATACTCCCTCCG 58.842 47.826 0.00 0.00 0.00 4.63
4021 4353 4.158015 CCCTAATAACATACTCCCTCCGT 58.842 47.826 0.00 0.00 0.00 4.69
4022 4354 4.220163 CCCTAATAACATACTCCCTCCGTC 59.780 50.000 0.00 0.00 0.00 4.79
4023 4355 4.220163 CCTAATAACATACTCCCTCCGTCC 59.780 50.000 0.00 0.00 0.00 4.79
4024 4356 1.683943 TAACATACTCCCTCCGTCCG 58.316 55.000 0.00 0.00 0.00 4.79
4025 4357 1.041447 AACATACTCCCTCCGTCCGG 61.041 60.000 0.00 0.00 0.00 5.14
4026 4358 1.152819 CATACTCCCTCCGTCCGGA 60.153 63.158 0.00 0.00 42.90 5.14
4027 4359 0.754217 CATACTCCCTCCGTCCGGAA 60.754 60.000 5.23 0.00 44.66 4.30
4028 4360 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
4029 4361 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
4030 4362 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
4031 4363 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
4032 4364 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
4033 4365 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
4034 4366 2.034124 CCCTCCGTCCGGAAATACTTA 58.966 52.381 5.23 0.00 44.66 2.24
4035 4367 2.631545 CCCTCCGTCCGGAAATACTTAT 59.368 50.000 5.23 0.00 44.66 1.73
4036 4368 3.305881 CCCTCCGTCCGGAAATACTTATC 60.306 52.174 5.23 0.00 44.66 1.75
4037 4369 3.319972 CCTCCGTCCGGAAATACTTATCA 59.680 47.826 5.23 0.00 44.66 2.15
4038 4370 4.021368 CCTCCGTCCGGAAATACTTATCAT 60.021 45.833 5.23 0.00 44.66 2.45
4039 4371 5.130292 TCCGTCCGGAAATACTTATCATC 57.870 43.478 5.23 0.00 42.05 2.92
4040 4372 4.585581 TCCGTCCGGAAATACTTATCATCA 59.414 41.667 5.23 0.00 42.05 3.07
4041 4373 5.069383 TCCGTCCGGAAATACTTATCATCAA 59.931 40.000 5.23 0.00 42.05 2.57
4042 4374 5.405571 CCGTCCGGAAATACTTATCATCAAG 59.594 44.000 5.23 0.00 37.50 3.02
4043 4375 6.213677 CGTCCGGAAATACTTATCATCAAGA 58.786 40.000 5.23 0.00 0.00 3.02
4044 4376 6.868864 CGTCCGGAAATACTTATCATCAAGAT 59.131 38.462 5.23 0.00 40.86 2.40
4045 4377 7.148738 CGTCCGGAAATACTTATCATCAAGATG 60.149 40.741 5.23 3.67 37.57 2.90
4046 4378 7.118390 GTCCGGAAATACTTATCATCAAGATGG 59.882 40.741 5.23 0.00 39.24 3.51
4047 4379 7.016170 TCCGGAAATACTTATCATCAAGATGGA 59.984 37.037 0.00 0.00 39.24 3.41
4048 4380 7.826252 CCGGAAATACTTATCATCAAGATGGAT 59.174 37.037 9.96 5.53 39.24 3.41
4049 4381 9.875691 CGGAAATACTTATCATCAAGATGGATA 57.124 33.333 9.96 4.71 39.24 2.59
4101 4433 8.152023 ACATCTAGATACATCCCCTTTTATCC 57.848 38.462 4.54 0.00 0.00 2.59
4102 4434 7.739444 ACATCTAGATACATCCCCTTTTATCCA 59.261 37.037 4.54 0.00 0.00 3.41
4103 4435 7.798710 TCTAGATACATCCCCTTTTATCCAG 57.201 40.000 0.00 0.00 0.00 3.86
4104 4436 7.313731 TCTAGATACATCCCCTTTTATCCAGT 58.686 38.462 0.00 0.00 0.00 4.00
4105 4437 6.848562 AGATACATCCCCTTTTATCCAGTT 57.151 37.500 0.00 0.00 0.00 3.16
4106 4438 7.226059 AGATACATCCCCTTTTATCCAGTTT 57.774 36.000 0.00 0.00 0.00 2.66
4107 4439 7.062957 AGATACATCCCCTTTTATCCAGTTTG 58.937 38.462 0.00 0.00 0.00 2.93
4108 4440 5.269554 ACATCCCCTTTTATCCAGTTTGA 57.730 39.130 0.00 0.00 0.00 2.69
4109 4441 5.842339 ACATCCCCTTTTATCCAGTTTGAT 58.158 37.500 0.00 0.00 0.00 2.57
4110 4442 5.658190 ACATCCCCTTTTATCCAGTTTGATG 59.342 40.000 0.00 0.00 33.80 3.07
4111 4443 5.528600 TCCCCTTTTATCCAGTTTGATGA 57.471 39.130 0.00 0.00 0.00 2.92
4112 4444 5.261216 TCCCCTTTTATCCAGTTTGATGAC 58.739 41.667 0.00 0.00 0.00 3.06
4113 4445 5.016173 CCCCTTTTATCCAGTTTGATGACA 58.984 41.667 0.00 0.00 0.00 3.58
4114 4446 5.480073 CCCCTTTTATCCAGTTTGATGACAA 59.520 40.000 0.00 0.00 0.00 3.18
4115 4447 6.350445 CCCCTTTTATCCAGTTTGATGACAAG 60.350 42.308 0.00 0.00 37.32 3.16
4116 4448 6.209391 CCCTTTTATCCAGTTTGATGACAAGT 59.791 38.462 0.00 0.00 37.32 3.16
4117 4449 7.393234 CCCTTTTATCCAGTTTGATGACAAGTA 59.607 37.037 0.00 0.00 37.32 2.24
4118 4450 8.960591 CCTTTTATCCAGTTTGATGACAAGTAT 58.039 33.333 0.00 0.00 37.32 2.12
4122 4454 6.817765 TCCAGTTTGATGACAAGTATTTCC 57.182 37.500 0.00 0.00 37.32 3.13
4123 4455 5.411361 TCCAGTTTGATGACAAGTATTTCCG 59.589 40.000 0.00 0.00 37.32 4.30
4124 4456 5.391950 CCAGTTTGATGACAAGTATTTCCGG 60.392 44.000 0.00 0.00 37.32 5.14
4125 4457 4.700213 AGTTTGATGACAAGTATTTCCGGG 59.300 41.667 0.00 0.00 37.32 5.73
4126 4458 4.561500 TTGATGACAAGTATTTCCGGGA 57.438 40.909 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
141 190 2.440253 TCCTTTTCCACGGAAAGGAAGA 59.560 45.455 19.22 8.39 45.25 2.87
311 369 2.859165 AATCGGCAGAAGACTTTGGA 57.141 45.000 0.00 0.00 0.00 3.53
368 429 0.976641 AGAATCCCAACTGTCGCTCA 59.023 50.000 0.00 0.00 0.00 4.26
389 450 5.471556 AGCATCTCAATCTCATACCTCTG 57.528 43.478 0.00 0.00 0.00 3.35
490 555 4.019051 TCCAGGGCATATACCAATCAGATG 60.019 45.833 0.00 0.00 0.00 2.90
552 617 0.771756 CAAACATTCAGCGCAACGTG 59.228 50.000 11.47 5.70 0.00 4.49
615 684 2.764010 TCCGGTAGTAGAACACATGCAT 59.236 45.455 0.00 0.00 0.00 3.96
631 700 1.247567 CTTCAAGTGCCATTTCCGGT 58.752 50.000 0.00 0.00 0.00 5.28
678 747 0.798776 GTCTGGCTTGATGACAACCG 59.201 55.000 0.00 0.00 30.26 4.44
806 891 5.777802 AGCTATCTACCTTGTCATGAATCG 58.222 41.667 0.00 0.00 0.00 3.34
857 942 2.955614 TCTGAATTTCCGTCCTTCGAC 58.044 47.619 0.00 0.00 42.86 4.20
1125 1236 1.884235 AAACTGCACCCGAGAAAGAG 58.116 50.000 0.00 0.00 0.00 2.85
1221 1332 6.239120 CCACAAGGATGATCATCAAAATACCC 60.239 42.308 31.49 15.94 39.54 3.69
1458 1569 3.842820 ACATGACAACTCTCGATGACAG 58.157 45.455 0.00 0.00 0.00 3.51
1459 1570 3.942130 ACATGACAACTCTCGATGACA 57.058 42.857 0.00 0.00 0.00 3.58
1460 1571 4.237724 TCAACATGACAACTCTCGATGAC 58.762 43.478 0.00 0.00 0.00 3.06
1461 1572 4.519540 TCAACATGACAACTCTCGATGA 57.480 40.909 0.00 0.00 0.00 2.92
1462 1573 5.791367 ATTCAACATGACAACTCTCGATG 57.209 39.130 0.00 0.00 0.00 3.84
1463 1574 6.419116 CGATATTCAACATGACAACTCTCGAT 59.581 38.462 0.00 0.00 0.00 3.59
1464 1575 5.743872 CGATATTCAACATGACAACTCTCGA 59.256 40.000 0.00 0.00 0.00 4.04
1465 1576 5.743872 TCGATATTCAACATGACAACTCTCG 59.256 40.000 0.00 0.72 0.00 4.04
1466 1577 7.436376 TCATCGATATTCAACATGACAACTCTC 59.564 37.037 0.00 0.00 0.00 3.20
1467 1578 7.267857 TCATCGATATTCAACATGACAACTCT 58.732 34.615 0.00 0.00 0.00 3.24
1468 1579 7.468922 TCATCGATATTCAACATGACAACTC 57.531 36.000 0.00 0.00 0.00 3.01
1469 1580 8.340443 CAATCATCGATATTCAACATGACAACT 58.660 33.333 0.00 0.00 0.00 3.16
1470 1581 7.588854 CCAATCATCGATATTCAACATGACAAC 59.411 37.037 0.00 0.00 0.00 3.32
1471 1582 7.641760 CCAATCATCGATATTCAACATGACAA 58.358 34.615 0.00 0.00 0.00 3.18
1472 1583 6.293571 GCCAATCATCGATATTCAACATGACA 60.294 38.462 0.00 0.00 0.00 3.58
1473 1584 6.082338 GCCAATCATCGATATTCAACATGAC 58.918 40.000 0.00 0.00 0.00 3.06
1474 1585 5.764192 TGCCAATCATCGATATTCAACATGA 59.236 36.000 0.00 0.00 0.00 3.07
1475 1586 6.004408 TGCCAATCATCGATATTCAACATG 57.996 37.500 0.00 0.00 0.00 3.21
1476 1587 5.766670 ACTGCCAATCATCGATATTCAACAT 59.233 36.000 0.00 0.00 0.00 2.71
1477 1588 5.125356 ACTGCCAATCATCGATATTCAACA 58.875 37.500 0.00 0.00 0.00 3.33
1478 1589 5.679734 ACTGCCAATCATCGATATTCAAC 57.320 39.130 0.00 0.00 0.00 3.18
1491 1612 3.555956 CACCTGAACGTATACTGCCAATC 59.444 47.826 0.56 0.00 0.00 2.67
1606 1922 7.754851 ACCAAAAAGTGTTATACCGAAGAAT 57.245 32.000 0.00 0.00 0.00 2.40
1607 1923 7.282675 TGAACCAAAAAGTGTTATACCGAAGAA 59.717 33.333 0.00 0.00 0.00 2.52
1617 1933 3.181495 CCGCACTGAACCAAAAAGTGTTA 60.181 43.478 4.18 0.00 42.65 2.41
1634 1951 6.591834 AGATCTATGTTAATAATCAGCCGCAC 59.408 38.462 0.00 0.00 0.00 5.34
1677 1995 5.671493 ACTTGAGTATTATGGGAAACGGAG 58.329 41.667 0.00 0.00 0.00 4.63
1732 2050 7.010771 ACAGACATAGGAGCATATAGGTAACA 58.989 38.462 0.00 0.00 41.41 2.41
1733 2051 7.363094 GGACAGACATAGGAGCATATAGGTAAC 60.363 44.444 0.00 0.00 0.00 2.50
1734 2052 6.663953 GGACAGACATAGGAGCATATAGGTAA 59.336 42.308 0.00 0.00 0.00 2.85
1735 2053 6.188407 GGACAGACATAGGAGCATATAGGTA 58.812 44.000 0.00 0.00 0.00 3.08
1777 2095 7.271223 GCATATTTTGCGCTTATTTCGATATGT 59.729 33.333 9.73 0.00 42.54 2.29
1853 2172 6.486657 GGCAGTATCAATAATAGTTTGAGGCA 59.513 38.462 0.00 0.00 36.60 4.75
1883 2202 4.922206 AGCACATCACCTGGAAAAAGATA 58.078 39.130 0.00 0.00 0.00 1.98
1972 2292 3.485463 ACAACTGGACGAGAATTCCAA 57.515 42.857 0.65 0.00 42.76 3.53
2023 2343 1.133025 CGCTTAAAGCTCACCAATGGG 59.867 52.381 3.55 0.00 39.60 4.00
2098 2420 7.844009 TCGGTTAGTAATTTGGTTCAGATACT 58.156 34.615 0.00 0.00 0.00 2.12
2109 2431 6.258160 CCAAAGATGCTCGGTTAGTAATTTG 58.742 40.000 0.00 0.00 33.83 2.32
2121 2443 3.104602 CTGCGGCCAAAGATGCTCG 62.105 63.158 2.24 0.00 0.00 5.03
2352 2674 6.360370 AGAGCAAACCAAGTATGAAGTAGA 57.640 37.500 0.00 0.00 0.00 2.59
2421 2743 1.872952 CGATGCTGTGAACTGTCCAAA 59.127 47.619 0.00 0.00 0.00 3.28
2446 2768 4.400884 GTCTGACTTCTATCTTCCAGCTCA 59.599 45.833 0.00 0.00 0.00 4.26
2494 2816 4.449068 ACATAAACACTTGAACAGAGAGCG 59.551 41.667 0.00 0.00 0.00 5.03
2521 2843 4.880696 AGGAGATATGCAAAGAAGCTTGTC 59.119 41.667 2.10 0.00 34.99 3.18
2566 2888 1.885233 TCAAAATTGGCGAGCACATCA 59.115 42.857 0.00 0.00 0.00 3.07
2928 3250 6.548321 ACCAAAAGGATACCTACAAACATCA 58.452 36.000 0.00 0.00 31.13 3.07
2957 3279 8.757982 ATGAGCAGAATAAAGTTATTGGACAT 57.242 30.769 1.05 0.00 33.72 3.06
2961 3283 9.643693 AAACAATGAGCAGAATAAAGTTATTGG 57.356 29.630 1.05 0.00 33.72 3.16
3143 3465 6.423182 CATTGGACTTATTCCCTTGGAGTAA 58.577 40.000 0.00 0.00 45.17 2.24
3176 3498 9.261180 CTAAAGCTCAATAATCACTCCGAATTA 57.739 33.333 0.00 0.00 0.00 1.40
3208 3530 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
3209 3531 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
3210 3532 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
3211 3533 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
3212 3534 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
3213 3535 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
3214 3536 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
3215 3537 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
3216 3538 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
3217 3539 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
3218 3540 6.553100 ACAAAGTTGGGTCATCTATTTTGGAA 59.447 34.615 0.00 0.00 0.00 3.53
3219 3541 6.074648 ACAAAGTTGGGTCATCTATTTTGGA 58.925 36.000 0.00 0.00 0.00 3.53
3220 3542 6.345096 ACAAAGTTGGGTCATCTATTTTGG 57.655 37.500 0.00 0.00 0.00 3.28
3221 3543 8.110860 AGTACAAAGTTGGGTCATCTATTTTG 57.889 34.615 0.00 0.00 0.00 2.44
3222 3544 9.802039 TTAGTACAAAGTTGGGTCATCTATTTT 57.198 29.630 0.00 0.00 0.00 1.82
3223 3545 9.802039 TTTAGTACAAAGTTGGGTCATCTATTT 57.198 29.630 0.00 0.00 0.00 1.40
3224 3546 9.449719 CTTTAGTACAAAGTTGGGTCATCTATT 57.550 33.333 0.00 0.00 0.00 1.73
3225 3547 8.603304 ACTTTAGTACAAAGTTGGGTCATCTAT 58.397 33.333 14.04 0.00 37.18 1.98
3226 3548 7.970102 ACTTTAGTACAAAGTTGGGTCATCTA 58.030 34.615 14.04 0.00 37.18 1.98
3227 3549 6.838382 ACTTTAGTACAAAGTTGGGTCATCT 58.162 36.000 14.04 0.00 37.18 2.90
3228 3550 7.506328 AACTTTAGTACAAAGTTGGGTCATC 57.494 36.000 23.48 0.00 45.58 2.92
3229 3551 8.215736 ACTAACTTTAGTACAAAGTTGGGTCAT 58.784 33.333 28.62 17.19 46.38 3.06
3230 3552 7.567458 ACTAACTTTAGTACAAAGTTGGGTCA 58.433 34.615 28.62 17.50 46.38 4.02
3231 3553 9.716531 ATACTAACTTTAGTACAAAGTTGGGTC 57.283 33.333 28.62 0.00 46.38 4.46
3253 3575 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
3254 3576 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
3255 3577 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
3256 3578 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
3257 3579 7.726291 TGTTCCAAAATAGATGACCCAACTTTA 59.274 33.333 0.00 0.00 0.00 1.85
3258 3580 6.553100 TGTTCCAAAATAGATGACCCAACTTT 59.447 34.615 0.00 0.00 0.00 2.66
3259 3581 6.074648 TGTTCCAAAATAGATGACCCAACTT 58.925 36.000 0.00 0.00 0.00 2.66
3260 3582 5.640147 TGTTCCAAAATAGATGACCCAACT 58.360 37.500 0.00 0.00 0.00 3.16
3261 3583 5.710099 TCTGTTCCAAAATAGATGACCCAAC 59.290 40.000 0.00 0.00 28.72 3.77
3262 3584 5.886609 TCTGTTCCAAAATAGATGACCCAA 58.113 37.500 0.00 0.00 28.72 4.12
3263 3585 5.500234 CTCTGTTCCAAAATAGATGACCCA 58.500 41.667 0.00 0.00 32.88 4.51
3264 3586 4.884164 CCTCTGTTCCAAAATAGATGACCC 59.116 45.833 0.00 0.00 32.88 4.46
3265 3587 4.884164 CCCTCTGTTCCAAAATAGATGACC 59.116 45.833 0.00 0.00 32.88 4.02
3266 3588 5.745227 TCCCTCTGTTCCAAAATAGATGAC 58.255 41.667 0.00 0.00 32.88 3.06
3267 3589 5.488919 ACTCCCTCTGTTCCAAAATAGATGA 59.511 40.000 0.00 0.00 32.88 2.92
3268 3590 5.749462 ACTCCCTCTGTTCCAAAATAGATG 58.251 41.667 0.00 0.00 32.88 2.90
3269 3591 7.698163 ATACTCCCTCTGTTCCAAAATAGAT 57.302 36.000 0.00 0.00 32.88 1.98
3270 3592 8.798975 ATATACTCCCTCTGTTCCAAAATAGA 57.201 34.615 0.00 0.00 32.42 1.98
3271 3593 9.277783 CAATATACTCCCTCTGTTCCAAAATAG 57.722 37.037 0.00 0.00 0.00 1.73
3272 3594 7.719633 GCAATATACTCCCTCTGTTCCAAAATA 59.280 37.037 0.00 0.00 0.00 1.40
3273 3595 6.547510 GCAATATACTCCCTCTGTTCCAAAAT 59.452 38.462 0.00 0.00 0.00 1.82
3274 3596 5.885912 GCAATATACTCCCTCTGTTCCAAAA 59.114 40.000 0.00 0.00 0.00 2.44
3275 3597 5.045213 TGCAATATACTCCCTCTGTTCCAAA 60.045 40.000 0.00 0.00 0.00 3.28
3276 3598 4.473196 TGCAATATACTCCCTCTGTTCCAA 59.527 41.667 0.00 0.00 0.00 3.53
3277 3599 4.037222 TGCAATATACTCCCTCTGTTCCA 58.963 43.478 0.00 0.00 0.00 3.53
3278 3600 4.141711 TGTGCAATATACTCCCTCTGTTCC 60.142 45.833 0.00 0.00 0.00 3.62
3279 3601 5.023533 TGTGCAATATACTCCCTCTGTTC 57.976 43.478 0.00 0.00 0.00 3.18
3280 3602 4.471386 ACTGTGCAATATACTCCCTCTGTT 59.529 41.667 0.00 0.00 0.00 3.16
3281 3603 4.033709 ACTGTGCAATATACTCCCTCTGT 58.966 43.478 0.00 0.00 0.00 3.41
3282 3604 4.100035 TGACTGTGCAATATACTCCCTCTG 59.900 45.833 0.00 0.00 0.00 3.35
3283 3605 4.290093 TGACTGTGCAATATACTCCCTCT 58.710 43.478 0.00 0.00 0.00 3.69
3284 3606 4.672587 TGACTGTGCAATATACTCCCTC 57.327 45.455 0.00 0.00 0.00 4.30
3285 3607 5.186198 GTTTGACTGTGCAATATACTCCCT 58.814 41.667 0.00 0.00 0.00 4.20
3286 3608 4.941263 TGTTTGACTGTGCAATATACTCCC 59.059 41.667 0.00 0.00 0.00 4.30
3287 3609 6.494893 TTGTTTGACTGTGCAATATACTCC 57.505 37.500 0.00 0.00 0.00 3.85
3288 3610 7.482743 CACATTGTTTGACTGTGCAATATACTC 59.517 37.037 0.00 0.00 34.47 2.59
3289 3611 7.174772 TCACATTGTTTGACTGTGCAATATACT 59.825 33.333 0.00 0.00 40.02 2.12
3290 3612 7.304735 TCACATTGTTTGACTGTGCAATATAC 58.695 34.615 0.00 0.00 40.02 1.47
3291 3613 7.446001 TCACATTGTTTGACTGTGCAATATA 57.554 32.000 0.00 0.00 40.02 0.86
3299 3621 6.183360 ACCATGAAATCACATTGTTTGACTGT 60.183 34.615 0.00 0.00 0.00 3.55
3307 3629 2.234414 GGCCACCATGAAATCACATTGT 59.766 45.455 0.00 0.00 0.00 2.71
3495 3817 7.125536 TCAAGATGATCGAATATGAACATGC 57.874 36.000 0.00 0.00 32.29 4.06
3574 3896 8.212995 ACATGATATATCCACAACAATGTCTCA 58.787 33.333 10.25 0.00 37.82 3.27
3655 3987 5.961272 TGTTCGCCTTTTTCTTCTCTTTTT 58.039 33.333 0.00 0.00 0.00 1.94
3656 3988 5.576447 TGTTCGCCTTTTTCTTCTCTTTT 57.424 34.783 0.00 0.00 0.00 2.27
3657 3989 5.560953 CGATGTTCGCCTTTTTCTTCTCTTT 60.561 40.000 0.00 0.00 31.14 2.52
3658 3990 4.083802 CGATGTTCGCCTTTTTCTTCTCTT 60.084 41.667 0.00 0.00 31.14 2.85
3659 3991 3.433615 CGATGTTCGCCTTTTTCTTCTCT 59.566 43.478 0.00 0.00 31.14 3.10
3660 3992 3.432252 TCGATGTTCGCCTTTTTCTTCTC 59.568 43.478 0.00 0.00 40.21 2.87
3661 3993 3.399330 TCGATGTTCGCCTTTTTCTTCT 58.601 40.909 0.00 0.00 40.21 2.85
3662 3994 3.737305 CTCGATGTTCGCCTTTTTCTTC 58.263 45.455 0.00 0.00 40.21 2.87
3663 3995 2.095718 GCTCGATGTTCGCCTTTTTCTT 60.096 45.455 0.00 0.00 40.21 2.52
3664 3996 1.464997 GCTCGATGTTCGCCTTTTTCT 59.535 47.619 0.00 0.00 40.21 2.52
3665 3997 1.465856 GGCTCGATGTTCGCCTTTTTC 60.466 52.381 5.43 0.00 40.21 2.29
3666 3998 0.521735 GGCTCGATGTTCGCCTTTTT 59.478 50.000 5.43 0.00 40.21 1.94
3667 3999 1.635663 CGGCTCGATGTTCGCCTTTT 61.636 55.000 10.51 0.00 41.61 2.27
3668 4000 2.100631 CGGCTCGATGTTCGCCTTT 61.101 57.895 10.51 0.00 41.61 3.11
3669 4001 2.509336 CGGCTCGATGTTCGCCTT 60.509 61.111 10.51 0.00 41.61 4.35
3673 4005 1.225745 GTTTGCGGCTCGATGTTCG 60.226 57.895 0.00 0.00 42.10 3.95
3674 4006 1.134694 GGTTTGCGGCTCGATGTTC 59.865 57.895 0.00 0.00 0.00 3.18
3675 4007 0.036765 TAGGTTTGCGGCTCGATGTT 60.037 50.000 0.00 0.00 0.00 2.71
3676 4008 0.460284 CTAGGTTTGCGGCTCGATGT 60.460 55.000 0.00 0.00 0.00 3.06
3677 4009 1.154205 CCTAGGTTTGCGGCTCGATG 61.154 60.000 0.00 0.00 0.00 3.84
3678 4010 1.144057 CCTAGGTTTGCGGCTCGAT 59.856 57.895 0.00 0.00 0.00 3.59
3706 4038 3.270027 CACAAGAGAAGACACAACCACA 58.730 45.455 0.00 0.00 0.00 4.17
3758 4090 5.880887 GTCAAAGTTTCTCTACCTAATGGGG 59.119 44.000 0.00 0.00 40.03 4.96
3799 4131 9.381033 TGTCACATTTTCAAAACATGAGAAAAT 57.619 25.926 18.12 18.12 46.88 1.82
3917 4249 1.009829 GTGCCTTCTAGGATTGCACG 58.990 55.000 9.38 0.00 42.29 5.34
4012 4344 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
4013 4345 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
4014 4346 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
4015 4347 3.319972 TGATAAGTATTTCCGGACGGAGG 59.680 47.826 13.64 0.00 46.06 4.30
4016 4348 4.579454 TGATAAGTATTTCCGGACGGAG 57.421 45.455 13.64 0.00 46.06 4.63
4017 4349 4.585581 TGATGATAAGTATTTCCGGACGGA 59.414 41.667 1.83 9.76 43.52 4.69
4018 4350 4.878439 TGATGATAAGTATTTCCGGACGG 58.122 43.478 1.83 3.96 0.00 4.79
4019 4351 6.213677 TCTTGATGATAAGTATTTCCGGACG 58.786 40.000 1.83 0.00 0.00 4.79
4020 4352 7.118390 CCATCTTGATGATAAGTATTTCCGGAC 59.882 40.741 1.83 0.00 33.36 4.79
4021 4353 7.016170 TCCATCTTGATGATAAGTATTTCCGGA 59.984 37.037 0.00 0.00 33.36 5.14
4022 4354 7.161404 TCCATCTTGATGATAAGTATTTCCGG 58.839 38.462 11.76 0.00 33.36 5.14
4023 4355 8.783833 ATCCATCTTGATGATAAGTATTTCCG 57.216 34.615 11.76 0.00 33.36 4.30
4075 4407 9.268282 GGATAAAAGGGGATGTATCTAGATGTA 57.732 37.037 15.79 4.44 0.00 2.29
4076 4408 7.739444 TGGATAAAAGGGGATGTATCTAGATGT 59.261 37.037 15.79 1.25 0.00 3.06
4077 4409 8.150827 TGGATAAAAGGGGATGTATCTAGATG 57.849 38.462 15.79 0.00 0.00 2.90
4078 4410 7.964293 ACTGGATAAAAGGGGATGTATCTAGAT 59.036 37.037 10.73 10.73 35.96 1.98
4079 4411 7.313731 ACTGGATAAAAGGGGATGTATCTAGA 58.686 38.462 9.13 0.00 35.96 2.43
4080 4412 7.560796 ACTGGATAAAAGGGGATGTATCTAG 57.439 40.000 0.00 0.00 37.50 2.43
4081 4413 7.947782 AACTGGATAAAAGGGGATGTATCTA 57.052 36.000 0.00 0.00 0.00 1.98
4082 4414 6.848562 AACTGGATAAAAGGGGATGTATCT 57.151 37.500 0.00 0.00 0.00 1.98
4083 4415 7.060421 TCAAACTGGATAAAAGGGGATGTATC 58.940 38.462 0.00 0.00 0.00 2.24
4084 4416 6.980577 TCAAACTGGATAAAAGGGGATGTAT 58.019 36.000 0.00 0.00 0.00 2.29
4085 4417 6.395780 TCAAACTGGATAAAAGGGGATGTA 57.604 37.500 0.00 0.00 0.00 2.29
4086 4418 5.269554 TCAAACTGGATAAAAGGGGATGT 57.730 39.130 0.00 0.00 0.00 3.06
4087 4419 5.893255 TCATCAAACTGGATAAAAGGGGATG 59.107 40.000 0.00 0.00 0.00 3.51
4088 4420 5.893824 GTCATCAAACTGGATAAAAGGGGAT 59.106 40.000 0.00 0.00 0.00 3.85
4089 4421 5.222233 TGTCATCAAACTGGATAAAAGGGGA 60.222 40.000 0.00 0.00 0.00 4.81
4090 4422 5.016173 TGTCATCAAACTGGATAAAAGGGG 58.984 41.667 0.00 0.00 0.00 4.79
4091 4423 6.209391 ACTTGTCATCAAACTGGATAAAAGGG 59.791 38.462 0.00 0.00 32.87 3.95
4092 4424 7.219484 ACTTGTCATCAAACTGGATAAAAGG 57.781 36.000 0.00 0.00 32.87 3.11
4096 4428 8.956426 GGAAATACTTGTCATCAAACTGGATAA 58.044 33.333 0.00 0.00 32.87 1.75
4097 4429 7.279981 CGGAAATACTTGTCATCAAACTGGATA 59.720 37.037 0.00 0.00 32.87 2.59
4098 4430 6.094048 CGGAAATACTTGTCATCAAACTGGAT 59.906 38.462 0.00 0.00 32.87 3.41
4099 4431 5.411361 CGGAAATACTTGTCATCAAACTGGA 59.589 40.000 0.00 0.00 32.87 3.86
4100 4432 5.391950 CCGGAAATACTTGTCATCAAACTGG 60.392 44.000 0.00 0.00 32.87 4.00
4101 4433 5.391950 CCCGGAAATACTTGTCATCAAACTG 60.392 44.000 0.73 0.00 32.87 3.16
4102 4434 4.700213 CCCGGAAATACTTGTCATCAAACT 59.300 41.667 0.73 0.00 32.87 2.66
4103 4435 4.698304 TCCCGGAAATACTTGTCATCAAAC 59.302 41.667 0.73 0.00 32.87 2.93
4104 4436 4.912586 TCCCGGAAATACTTGTCATCAAA 58.087 39.130 0.73 0.00 32.87 2.69
4105 4437 4.561500 TCCCGGAAATACTTGTCATCAA 57.438 40.909 0.73 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.