Multiple sequence alignment - TraesCS7A01G120900

Loading Multiple Alignment...

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 TraesCS7A01G120900 chr7A 100.000 3768 0 0 1 3768 77876319 77880086 0.000000e+00 6959.0
1 TraesCS7A01G120900 chr7A 92.043 3456 220 25 51 3468 78143492 78140054 0.000000e+00 4807.0
2 TraesCS7A01G120900 chr7A 92.234 1764 115 14 1 1751 77997942 77999696 0.000000e+00 2479.0
3 TraesCS7A01G120900 chr7A 90.457 1729 118 14 1772 3468 77999689 78001402 0.000000e+00 2235.0
4 TraesCS7A01G120900 chr7A 83.677 1066 156 15 833 1889 68916776 68915720 0.000000e+00 989.0
5 TraesCS7A01G120900 chr7D 95.877 3590 105 16 207 3768 73362464 73366038 0.000000e+00 5770.0
6 TraesCS7A01G120900 chr7D 92.650 3415 208 16 89 3468 73621860 73618454 0.000000e+00 4876.0
7 TraesCS7A01G120900 chr7D 91.698 3505 219 31 1 3468 73545172 73548641 0.000000e+00 4795.0
8 TraesCS7A01G120900 chr7D 81.986 1954 280 53 833 2749 64830794 64828876 0.000000e+00 1592.0
9 TraesCS7A01G120900 chr7D 82.801 1064 168 12 833 1889 64809851 64808796 0.000000e+00 937.0
10 TraesCS7A01G120900 chr7D 87.644 348 35 6 3127 3474 73365789 73366128 7.580000e-107 398.0
11 TraesCS7A01G120900 chr7D 89.453 256 26 1 3514 3768 73365402 73365657 4.700000e-84 322.0
12 TraesCS7A01G120900 chr7D 95.455 44 2 0 51 94 73632227 73632184 1.880000e-08 71.3
13 TraesCS7A01G120900 chr7B 92.303 3469 220 23 1 3430 16513948 16517408 0.000000e+00 4883.0
14 TraesCS7A01G120900 chr7B 91.306 3324 209 36 193 3468 16706684 16709975 0.000000e+00 4464.0
15 TraesCS7A01G120900 chr7B 90.110 182 14 3 3591 3768 16709710 16709891 2.260000e-57 233.0


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 TraesCS7A01G120900 chr7A 77876319 77880086 3767 False 6959.000000 6959 100.000000 1 3768 1 chr7A.!!$F1 3767
1 TraesCS7A01G120900 chr7A 78140054 78143492 3438 True 4807.000000 4807 92.043000 51 3468 1 chr7A.!!$R2 3417
2 TraesCS7A01G120900 chr7A 77997942 78001402 3460 False 2357.000000 2479 91.345500 1 3468 2 chr7A.!!$F2 3467
3 TraesCS7A01G120900 chr7A 68915720 68916776 1056 True 989.000000 989 83.677000 833 1889 1 chr7A.!!$R1 1056
4 TraesCS7A01G120900 chr7D 73618454 73621860 3406 True 4876.000000 4876 92.650000 89 3468 1 chr7D.!!$R3 3379
5 TraesCS7A01G120900 chr7D 73545172 73548641 3469 False 4795.000000 4795 91.698000 1 3468 1 chr7D.!!$F1 3467
6 TraesCS7A01G120900 chr7D 73362464 73366128 3664 False 2163.333333 5770 90.991333 207 3768 3 chr7D.!!$F2 3561
7 TraesCS7A01G120900 chr7D 64828876 64830794 1918 True 1592.000000 1592 81.986000 833 2749 1 chr7D.!!$R2 1916
8 TraesCS7A01G120900 chr7D 64808796 64809851 1055 True 937.000000 937 82.801000 833 1889 1 chr7D.!!$R1 1056
9 TraesCS7A01G120900 chr7B 16513948 16517408 3460 False 4883.000000 4883 92.303000 1 3430 1 chr7B.!!$F1 3429
10 TraesCS7A01G120900 chr7B 16706684 16709975 3291 False 2348.500000 4464 90.708000 193 3768 2 chr7B.!!$F2 3575

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
111 112 1.348064 ATCACGGGGAAGTTGTGAGA 58.652 50.000 0.66 0.0 44.94 3.27 F
464 468 1.881973 GCATCATACACCCATGCGATT 59.118 47.619 0.00 0.0 34.01 3.34 F
1405 1429 0.329596 GGATGGCAAGAGGAGGTTGT 59.670 55.000 0.00 0.0 0.00 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1390 1414 1.457346 CATGACAACCTCCTCTTGCC 58.543 55.000 0.00 0.00 0.0 4.52 R
2425 2483 0.242017 GATTGCAAGGCGAGTGCTTT 59.758 50.000 4.94 0.68 41.7 3.51 R
3236 3709 1.448540 CCAGTTGGCCTCTGTAGCG 60.449 63.158 20.89 7.54 0.0 4.26 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
42 43 6.072838 GCATGACATGATACAGACCTTATTGG 60.073 42.308 19.76 0.00 42.93 3.16
111 112 1.348064 ATCACGGGGAAGTTGTGAGA 58.652 50.000 0.66 0.00 44.94 3.27
120 121 3.503748 GGGAAGTTGTGAGAAATGGTGAG 59.496 47.826 0.00 0.00 0.00 3.51
121 122 4.137543 GGAAGTTGTGAGAAATGGTGAGT 58.862 43.478 0.00 0.00 0.00 3.41
123 124 2.880890 AGTTGTGAGAAATGGTGAGTGC 59.119 45.455 0.00 0.00 0.00 4.40
151 152 4.974645 ACCGATCATGGTGGTTATGTAT 57.025 40.909 0.00 0.00 41.85 2.29
271 275 8.087982 AGTCATAATGGTTACATATGAAAGCG 57.912 34.615 10.38 0.00 35.94 4.68
297 301 4.454728 TCATATCAAGGCTTTGTTTGGC 57.545 40.909 8.56 0.00 35.73 4.52
464 468 1.881973 GCATCATACACCCATGCGATT 59.118 47.619 0.00 0.00 34.01 3.34
569 574 8.565896 TTGAGCGGAGAAATATATATGCAATT 57.434 30.769 0.00 0.00 0.00 2.32
848 867 6.265196 TGACAATGGGATATGAAATTGGTAGC 59.735 38.462 0.00 0.00 34.92 3.58
948 969 9.480053 CATGTTTTACCATCAGAACAAGATTTT 57.520 29.630 0.00 0.00 35.83 1.82
1147 1171 2.575532 GGGGCGAGATCAATCATTGAA 58.424 47.619 3.63 0.00 43.95 2.69
1214 1238 5.423015 AGAACAAGAAGCATGATATCGTGT 58.577 37.500 22.82 7.20 37.38 4.49
1296 1320 8.326529 TGATGATCTTGTTATGGAGATGCATAT 58.673 33.333 0.00 0.00 32.96 1.78
1325 1349 3.574826 AGTGTCCAGAGAAGGAGTACAAC 59.425 47.826 0.00 0.00 38.64 3.32
1390 1414 6.147656 GGCCTTGTGAATAAAAACTTTGGATG 59.852 38.462 0.00 0.00 0.00 3.51
1405 1429 0.329596 GGATGGCAAGAGGAGGTTGT 59.670 55.000 0.00 0.00 0.00 3.32
1599 1623 7.888021 AGGAACACAGGTTATTCATGTTTCATA 59.112 33.333 0.00 0.00 39.11 2.15
1679 1711 7.384387 GGAGATGTCGGGTGTATTTTAATAGAC 59.616 40.741 2.15 2.15 35.18 2.59
1734 1768 9.573166 TCATTATCATGAATCGGAGGTTTATTT 57.427 29.630 0.00 0.00 36.41 1.40
2253 2311 2.041081 TGGTCGTGGAAAATGGAAGGAT 59.959 45.455 0.00 0.00 0.00 3.24
2299 2357 0.462759 GACTCCAGCCCAGATTTCGG 60.463 60.000 0.00 0.00 0.00 4.30
2425 2483 9.479549 AAATGGAGAATAGCTTTAATTTCTGGA 57.520 29.630 0.00 0.00 0.00 3.86
2457 2515 3.119029 CCTTGCAATCTACAATTGGTGGG 60.119 47.826 10.83 0.00 0.00 4.61
2622 2692 2.814336 GGGCTAGTGAACTTTGTTCCTG 59.186 50.000 7.81 0.00 0.00 3.86
2851 2922 4.207891 ACATGTAAGGAGGTGTGACATC 57.792 45.455 0.00 0.00 0.00 3.06
3143 3235 8.860088 TGAAGGCTAAAGAGAAGCTTTATTTTT 58.140 29.630 0.00 3.57 45.39 1.94
3163 3636 1.816074 TAGACGAAGCGGGCATTTTT 58.184 45.000 0.00 0.00 0.00 1.94
3171 3644 4.554723 CGAAGCGGGCATTTTTCCTATTAG 60.555 45.833 0.00 0.00 0.00 1.73
3210 3683 9.871238 GTTTCAATTCTATTGGACTGTAGAGTA 57.129 33.333 0.00 0.00 30.16 2.59
3211 3684 9.871238 TTTCAATTCTATTGGACTGTAGAGTAC 57.129 33.333 0.00 0.00 32.92 2.73
3236 3709 7.599998 ACAAACACAATAGAATCTTGAAATGCC 59.400 33.333 0.00 0.00 0.00 4.40
3257 3730 1.762957 GCTACAGAGGCCAACTGGATA 59.237 52.381 25.97 14.01 39.38 2.59
3347 3825 8.913487 AAGTCGATCCCTTCTTAAGTTTTTAA 57.087 30.769 1.63 0.00 0.00 1.52
3411 3889 4.657013 ACAAACCCACAAACACCAAAAAT 58.343 34.783 0.00 0.00 0.00 1.82
3456 3936 7.504926 TTGGATAAAATGTAGGGTAGTGACT 57.495 36.000 0.00 0.00 0.00 3.41
3470 3950 4.262894 GGTAGTGACTGAATTTCCACTCCA 60.263 45.833 9.24 0.00 40.07 3.86
3474 3954 3.084039 GACTGAATTTCCACTCCATGCA 58.916 45.455 0.00 0.00 0.00 3.96
3475 3955 2.821969 ACTGAATTTCCACTCCATGCAC 59.178 45.455 0.00 0.00 0.00 4.57
3476 3956 2.821378 CTGAATTTCCACTCCATGCACA 59.179 45.455 0.00 0.00 0.00 4.57
3477 3957 2.821378 TGAATTTCCACTCCATGCACAG 59.179 45.455 0.00 0.00 0.00 3.66
3478 3958 2.885135 ATTTCCACTCCATGCACAGA 57.115 45.000 0.00 0.00 0.00 3.41
3479 3959 2.655090 TTTCCACTCCATGCACAGAA 57.345 45.000 0.00 0.00 0.00 3.02
3480 3960 2.189594 TTCCACTCCATGCACAGAAG 57.810 50.000 0.00 0.00 0.00 2.85
3481 3961 1.059098 TCCACTCCATGCACAGAAGT 58.941 50.000 0.00 0.00 0.00 3.01
3482 3962 2.256306 TCCACTCCATGCACAGAAGTA 58.744 47.619 0.00 0.00 0.00 2.24
3483 3963 2.028112 TCCACTCCATGCACAGAAGTAC 60.028 50.000 0.00 0.00 0.00 2.73
3484 3964 2.027745 CCACTCCATGCACAGAAGTACT 60.028 50.000 0.00 0.00 0.00 2.73
3485 3965 3.557898 CCACTCCATGCACAGAAGTACTT 60.558 47.826 8.13 8.13 0.00 2.24
3486 3966 3.681897 CACTCCATGCACAGAAGTACTTC 59.318 47.826 25.24 25.24 39.78 3.01
3487 3967 3.324846 ACTCCATGCACAGAAGTACTTCA 59.675 43.478 31.80 15.81 41.84 3.02
3488 3968 4.019860 ACTCCATGCACAGAAGTACTTCAT 60.020 41.667 31.80 19.50 41.84 2.57
3489 3969 4.910195 TCCATGCACAGAAGTACTTCATT 58.090 39.130 31.80 18.18 41.84 2.57
3490 3970 6.048732 TCCATGCACAGAAGTACTTCATTA 57.951 37.500 31.80 16.35 41.84 1.90
3491 3971 6.108687 TCCATGCACAGAAGTACTTCATTAG 58.891 40.000 31.80 21.45 41.84 1.73
3492 3972 5.295292 CCATGCACAGAAGTACTTCATTAGG 59.705 44.000 31.80 20.50 41.84 2.69
3493 3973 4.253685 TGCACAGAAGTACTTCATTAGGC 58.746 43.478 31.80 25.57 41.84 3.93
3494 3974 4.020218 TGCACAGAAGTACTTCATTAGGCT 60.020 41.667 31.80 11.25 41.84 4.58
3495 3975 5.186992 TGCACAGAAGTACTTCATTAGGCTA 59.813 40.000 31.80 16.65 41.84 3.93
3496 3976 6.127054 TGCACAGAAGTACTTCATTAGGCTAT 60.127 38.462 31.80 9.90 41.84 2.97
3497 3977 7.069455 TGCACAGAAGTACTTCATTAGGCTATA 59.931 37.037 31.80 12.78 41.84 1.31
3498 3978 7.596995 GCACAGAAGTACTTCATTAGGCTATAG 59.403 40.741 31.80 12.29 41.84 1.31
3499 3979 8.851145 CACAGAAGTACTTCATTAGGCTATAGA 58.149 37.037 31.80 0.00 41.84 1.98
3500 3980 9.073475 ACAGAAGTACTTCATTAGGCTATAGAG 57.927 37.037 31.80 9.97 41.84 2.43
3501 3981 8.026607 CAGAAGTACTTCATTAGGCTATAGAGC 58.973 40.741 31.80 0.00 43.83 4.09
3502 3982 7.726291 AGAAGTACTTCATTAGGCTATAGAGCA 59.274 37.037 31.80 0.00 45.11 4.26
3503 3983 8.361139 GAAGTACTTCATTAGGCTATAGAGCAA 58.639 37.037 27.12 0.00 43.60 3.91
3512 3992 2.557920 CTATAGAGCAAAGGGCCAGG 57.442 55.000 6.18 0.00 46.50 4.45
3513 3993 2.050144 CTATAGAGCAAAGGGCCAGGA 58.950 52.381 6.18 0.00 46.50 3.86
3514 3994 1.298953 ATAGAGCAAAGGGCCAGGAA 58.701 50.000 6.18 0.00 46.50 3.36
3515 3995 0.620556 TAGAGCAAAGGGCCAGGAAG 59.379 55.000 6.18 0.00 46.50 3.46
3516 3996 1.136329 AGAGCAAAGGGCCAGGAAGA 61.136 55.000 6.18 0.00 46.50 2.87
3517 3997 0.679321 GAGCAAAGGGCCAGGAAGAG 60.679 60.000 6.18 0.00 46.50 2.85
3518 3998 1.136329 AGCAAAGGGCCAGGAAGAGA 61.136 55.000 6.18 0.00 46.50 3.10
3519 3999 0.251341 GCAAAGGGCCAGGAAGAGAA 60.251 55.000 6.18 0.00 36.11 2.87
3520 4000 1.831580 CAAAGGGCCAGGAAGAGAAG 58.168 55.000 6.18 0.00 0.00 2.85
3521 4001 0.038890 AAAGGGCCAGGAAGAGAAGC 59.961 55.000 6.18 0.00 0.00 3.86
3522 4002 0.844221 AAGGGCCAGGAAGAGAAGCT 60.844 55.000 6.18 0.00 0.00 3.74
3523 4003 0.844221 AGGGCCAGGAAGAGAAGCTT 60.844 55.000 6.18 0.00 40.25 3.74
3524 4004 0.038890 GGGCCAGGAAGAGAAGCTTT 59.961 55.000 4.39 0.00 36.83 3.51
3525 4005 1.282157 GGGCCAGGAAGAGAAGCTTTA 59.718 52.381 4.39 0.00 36.83 1.85
3526 4006 2.092158 GGGCCAGGAAGAGAAGCTTTAT 60.092 50.000 4.39 0.00 36.83 1.40
3527 4007 3.625853 GGCCAGGAAGAGAAGCTTTATT 58.374 45.455 0.00 0.00 36.83 1.40
3528 4008 4.019858 GGCCAGGAAGAGAAGCTTTATTT 58.980 43.478 0.00 0.00 36.83 1.40
3529 4009 4.464244 GGCCAGGAAGAGAAGCTTTATTTT 59.536 41.667 0.00 0.00 36.83 1.82
3530 4010 5.405797 GCCAGGAAGAGAAGCTTTATTTTG 58.594 41.667 0.00 0.21 36.83 2.44
3531 4011 5.623141 GCCAGGAAGAGAAGCTTTATTTTGG 60.623 44.000 0.00 9.18 36.83 3.28
3532 4012 5.711976 CCAGGAAGAGAAGCTTTATTTTGGA 59.288 40.000 0.00 0.00 36.83 3.53
3533 4013 6.127786 CCAGGAAGAGAAGCTTTATTTTGGAG 60.128 42.308 0.00 0.00 36.83 3.86
3534 4014 6.656693 CAGGAAGAGAAGCTTTATTTTGGAGA 59.343 38.462 0.00 0.00 36.83 3.71
3535 4015 6.657117 AGGAAGAGAAGCTTTATTTTGGAGAC 59.343 38.462 0.00 0.00 36.83 3.36
3536 4016 6.431234 GGAAGAGAAGCTTTATTTTGGAGACA 59.569 38.462 0.00 0.00 36.83 3.41
3537 4017 7.361628 GGAAGAGAAGCTTTATTTTGGAGACAG 60.362 40.741 0.00 0.00 38.31 3.51
3538 4018 6.773638 AGAGAAGCTTTATTTTGGAGACAGA 58.226 36.000 0.00 0.00 44.54 3.41
3539 4019 6.878389 AGAGAAGCTTTATTTTGGAGACAGAG 59.122 38.462 0.00 0.00 44.54 3.35
3540 4020 6.538263 AGAAGCTTTATTTTGGAGACAGAGT 58.462 36.000 0.00 0.00 44.54 3.24
3541 4021 6.429385 AGAAGCTTTATTTTGGAGACAGAGTG 59.571 38.462 0.00 0.00 44.54 3.51
3542 4022 5.006386 AGCTTTATTTTGGAGACAGAGTGG 58.994 41.667 0.00 0.00 44.54 4.00
3543 4023 4.156739 GCTTTATTTTGGAGACAGAGTGGG 59.843 45.833 0.00 0.00 44.54 4.61
3544 4024 2.206576 ATTTTGGAGACAGAGTGGGC 57.793 50.000 0.00 0.00 44.54 5.36
3545 4025 0.843309 TTTTGGAGACAGAGTGGGCA 59.157 50.000 0.00 0.00 44.54 5.36
3546 4026 1.067295 TTTGGAGACAGAGTGGGCAT 58.933 50.000 0.00 0.00 44.54 4.40
3547 4027 1.067295 TTGGAGACAGAGTGGGCATT 58.933 50.000 0.00 0.00 44.54 3.56
3548 4028 1.067295 TGGAGACAGAGTGGGCATTT 58.933 50.000 0.00 0.00 35.01 2.32
3549 4029 1.003580 TGGAGACAGAGTGGGCATTTC 59.996 52.381 0.00 0.00 35.01 2.17
3550 4030 1.363744 GAGACAGAGTGGGCATTTCG 58.636 55.000 0.00 0.00 0.00 3.46
3551 4031 0.674895 AGACAGAGTGGGCATTTCGC 60.675 55.000 0.00 0.00 41.28 4.70
3566 4046 6.359480 GCATTTCGCCTATTACACTTTAGT 57.641 37.500 0.00 0.00 32.94 2.24
3567 4047 7.473027 GCATTTCGCCTATTACACTTTAGTA 57.527 36.000 0.00 0.00 32.94 1.82
3568 4048 7.342942 GCATTTCGCCTATTACACTTTAGTAC 58.657 38.462 0.00 0.00 32.94 2.73
3569 4049 7.010738 GCATTTCGCCTATTACACTTTAGTACA 59.989 37.037 0.00 0.00 32.94 2.90
3570 4050 7.816945 TTTCGCCTATTACACTTTAGTACAC 57.183 36.000 0.00 0.00 0.00 2.90
3571 4051 5.572211 TCGCCTATTACACTTTAGTACACG 58.428 41.667 0.00 0.00 0.00 4.49
3572 4052 5.353956 TCGCCTATTACACTTTAGTACACGA 59.646 40.000 0.00 0.00 0.00 4.35
3573 4053 6.038603 TCGCCTATTACACTTTAGTACACGAT 59.961 38.462 0.00 0.00 0.00 3.73
3574 4054 6.694411 CGCCTATTACACTTTAGTACACGATT 59.306 38.462 0.00 0.00 0.00 3.34
3575 4055 7.096722 CGCCTATTACACTTTAGTACACGATTC 60.097 40.741 0.00 0.00 0.00 2.52
3576 4056 7.703621 GCCTATTACACTTTAGTACACGATTCA 59.296 37.037 0.00 0.00 0.00 2.57
3577 4057 9.577110 CCTATTACACTTTAGTACACGATTCAA 57.423 33.333 0.00 0.00 0.00 2.69
3581 4061 9.701098 TTACACTTTAGTACACGATTCAATTCT 57.299 29.630 0.00 0.00 0.00 2.40
3583 4063 9.871238 ACACTTTAGTACACGATTCAATTCTAT 57.129 29.630 0.00 0.00 0.00 1.98
3587 4067 8.657074 TTAGTACACGATTCAATTCTATTGGG 57.343 34.615 0.00 0.00 0.00 4.12
3588 4068 4.900635 ACACGATTCAATTCTATTGGGC 57.099 40.909 0.00 0.00 0.00 5.36
3589 4069 3.632145 ACACGATTCAATTCTATTGGGCC 59.368 43.478 0.00 0.00 0.00 5.80
3590 4070 3.631686 CACGATTCAATTCTATTGGGCCA 59.368 43.478 0.00 0.00 0.00 5.36
3591 4071 4.279169 CACGATTCAATTCTATTGGGCCAT 59.721 41.667 7.26 0.00 0.00 4.40
3592 4072 5.473162 CACGATTCAATTCTATTGGGCCATA 59.527 40.000 7.26 0.00 0.00 2.74
3593 4073 5.707298 ACGATTCAATTCTATTGGGCCATAG 59.293 40.000 7.26 11.56 0.00 2.23
3594 4074 5.939883 CGATTCAATTCTATTGGGCCATAGA 59.060 40.000 7.26 13.75 0.00 1.98
3595 4075 6.093219 CGATTCAATTCTATTGGGCCATAGAG 59.907 42.308 7.26 5.18 31.79 2.43
3596 4076 5.912149 TCAATTCTATTGGGCCATAGAGT 57.088 39.130 7.26 10.66 31.79 3.24
3597 4077 7.387265 TTCAATTCTATTGGGCCATAGAGTA 57.613 36.000 7.26 3.73 31.79 2.59
3598 4078 7.574021 TCAATTCTATTGGGCCATAGAGTAT 57.426 36.000 7.26 0.00 31.79 2.12
3599 4079 8.679344 TCAATTCTATTGGGCCATAGAGTATA 57.321 34.615 7.26 0.00 31.79 1.47
3600 4080 9.111519 TCAATTCTATTGGGCCATAGAGTATAA 57.888 33.333 7.26 2.36 31.79 0.98
3601 4081 9.739276 CAATTCTATTGGGCCATAGAGTATAAA 57.261 33.333 7.26 1.68 31.79 1.40
3602 4082 9.740710 AATTCTATTGGGCCATAGAGTATAAAC 57.259 33.333 7.26 0.00 31.79 2.01
3603 4083 7.865530 TCTATTGGGCCATAGAGTATAAACA 57.134 36.000 7.26 0.00 0.00 2.83
3604 4084 7.676947 TCTATTGGGCCATAGAGTATAAACAC 58.323 38.462 7.26 0.00 0.00 3.32
3605 4085 5.702065 TTGGGCCATAGAGTATAAACACA 57.298 39.130 7.26 0.00 0.00 3.72
3606 4086 5.702065 TGGGCCATAGAGTATAAACACAA 57.298 39.130 0.00 0.00 0.00 3.33
3607 4087 6.260700 TGGGCCATAGAGTATAAACACAAT 57.739 37.500 0.00 0.00 0.00 2.71
3608 4088 7.381789 TGGGCCATAGAGTATAAACACAATA 57.618 36.000 0.00 0.00 0.00 1.90
3609 4089 7.450074 TGGGCCATAGAGTATAAACACAATAG 58.550 38.462 0.00 0.00 0.00 1.73
3610 4090 7.291416 TGGGCCATAGAGTATAAACACAATAGA 59.709 37.037 0.00 0.00 0.00 1.98
3611 4091 8.154856 GGGCCATAGAGTATAAACACAATAGAA 58.845 37.037 4.39 0.00 0.00 2.10
3612 4092 9.726438 GGCCATAGAGTATAAACACAATAGAAT 57.274 33.333 0.00 0.00 0.00 2.40
3623 4103 5.490139 ACACAATAGAATCTTGGAATGCG 57.510 39.130 0.00 0.00 0.00 4.73
3624 4104 5.185454 ACACAATAGAATCTTGGAATGCGA 58.815 37.500 0.00 0.00 0.00 5.10
3625 4105 5.065218 ACACAATAGAATCTTGGAATGCGAC 59.935 40.000 0.00 0.00 0.00 5.19
3626 4106 5.295292 CACAATAGAATCTTGGAATGCGACT 59.705 40.000 0.00 0.00 0.00 4.18
3627 4107 6.479990 CACAATAGAATCTTGGAATGCGACTA 59.520 38.462 0.00 0.00 0.00 2.59
3628 4108 6.480320 ACAATAGAATCTTGGAATGCGACTAC 59.520 38.462 0.00 0.00 0.00 2.73
3629 4109 4.471904 AGAATCTTGGAATGCGACTACA 57.528 40.909 0.00 0.00 0.00 2.74
3630 4110 4.437239 AGAATCTTGGAATGCGACTACAG 58.563 43.478 0.00 0.00 0.00 2.74
3631 4111 4.160439 AGAATCTTGGAATGCGACTACAGA 59.840 41.667 0.00 0.00 0.00 3.41
3632 4112 3.510388 TCTTGGAATGCGACTACAGAG 57.490 47.619 0.00 0.00 0.00 3.35
3633 4113 2.166459 TCTTGGAATGCGACTACAGAGG 59.834 50.000 0.00 0.00 0.00 3.69
3634 4114 0.175760 TGGAATGCGACTACAGAGGC 59.824 55.000 0.00 0.00 0.00 4.70
3635 4115 0.530870 GGAATGCGACTACAGAGGCC 60.531 60.000 0.00 0.00 0.00 5.19
3636 4116 0.175760 GAATGCGACTACAGAGGCCA 59.824 55.000 5.01 0.00 0.00 5.36
3637 4117 0.613260 AATGCGACTACAGAGGCCAA 59.387 50.000 5.01 0.00 0.00 4.52
3638 4118 0.108138 ATGCGACTACAGAGGCCAAC 60.108 55.000 5.01 0.00 0.00 3.77
3639 4119 1.185618 TGCGACTACAGAGGCCAACT 61.186 55.000 5.01 0.00 0.00 3.16
3640 4120 0.815734 GCGACTACAGAGGCCAACTA 59.184 55.000 5.01 0.00 0.00 2.24
3641 4121 1.202313 GCGACTACAGAGGCCAACTAG 60.202 57.143 5.01 1.87 0.00 2.57
3642 4122 2.366533 CGACTACAGAGGCCAACTAGA 58.633 52.381 5.01 0.00 0.00 2.43
3643 4123 2.952978 CGACTACAGAGGCCAACTAGAT 59.047 50.000 5.01 0.00 0.00 1.98
3644 4124 3.003897 CGACTACAGAGGCCAACTAGATC 59.996 52.174 5.01 0.00 0.00 2.75
3645 4125 3.301274 ACTACAGAGGCCAACTAGATCC 58.699 50.000 5.01 0.00 0.00 3.36
3646 4126 1.501582 ACAGAGGCCAACTAGATCCC 58.498 55.000 5.01 0.00 0.00 3.85
3647 4127 1.008938 ACAGAGGCCAACTAGATCCCT 59.991 52.381 5.01 0.00 0.00 4.20
3648 4128 2.247635 ACAGAGGCCAACTAGATCCCTA 59.752 50.000 5.01 0.00 0.00 3.53
3649 4129 2.896685 CAGAGGCCAACTAGATCCCTAG 59.103 54.545 5.01 0.00 46.10 3.02
3650 4130 2.792370 AGAGGCCAACTAGATCCCTAGA 59.208 50.000 5.01 0.00 44.00 2.43
3651 4131 3.161866 GAGGCCAACTAGATCCCTAGAG 58.838 54.545 5.01 0.00 44.00 2.43
3652 4132 1.621317 GGCCAACTAGATCCCTAGAGC 59.379 57.143 0.00 6.09 44.00 4.09
3653 4133 1.621317 GCCAACTAGATCCCTAGAGCC 59.379 57.143 0.00 0.00 44.00 4.70
3654 4134 2.964209 CCAACTAGATCCCTAGAGCCA 58.036 52.381 0.00 0.00 44.00 4.75
3655 4135 2.896685 CCAACTAGATCCCTAGAGCCAG 59.103 54.545 0.00 0.00 44.00 4.85
3656 4136 3.571590 CAACTAGATCCCTAGAGCCAGT 58.428 50.000 0.00 0.00 44.00 4.00
3657 4137 3.237268 ACTAGATCCCTAGAGCCAGTG 57.763 52.381 0.00 0.00 44.00 3.66
3658 4138 2.786445 ACTAGATCCCTAGAGCCAGTGA 59.214 50.000 0.00 0.00 44.00 3.41
3659 4139 2.380064 AGATCCCTAGAGCCAGTGAG 57.620 55.000 0.00 0.00 0.00 3.51
3660 4140 1.856259 AGATCCCTAGAGCCAGTGAGA 59.144 52.381 0.00 0.00 0.00 3.27
3661 4141 2.246067 AGATCCCTAGAGCCAGTGAGAA 59.754 50.000 0.00 0.00 0.00 2.87
3662 4142 2.151502 TCCCTAGAGCCAGTGAGAAG 57.848 55.000 0.00 0.00 0.00 2.85
3663 4143 1.359474 TCCCTAGAGCCAGTGAGAAGT 59.641 52.381 0.00 0.00 0.00 3.01
3664 4144 2.183679 CCCTAGAGCCAGTGAGAAGTT 58.816 52.381 0.00 0.00 0.00 2.66
3665 4145 2.569404 CCCTAGAGCCAGTGAGAAGTTT 59.431 50.000 0.00 0.00 0.00 2.66
3666 4146 3.594134 CCTAGAGCCAGTGAGAAGTTTG 58.406 50.000 0.00 0.00 0.00 2.93
3667 4147 1.889545 AGAGCCAGTGAGAAGTTTGC 58.110 50.000 0.00 0.00 0.00 3.68
3668 4148 0.514691 GAGCCAGTGAGAAGTTTGCG 59.485 55.000 0.00 0.00 0.00 4.85
3669 4149 1.081840 GCCAGTGAGAAGTTTGCGC 60.082 57.895 0.00 0.00 0.00 6.09
3670 4150 1.510480 GCCAGTGAGAAGTTTGCGCT 61.510 55.000 9.73 0.00 0.00 5.92
3671 4151 0.947244 CCAGTGAGAAGTTTGCGCTT 59.053 50.000 9.73 0.00 0.00 4.68
3672 4152 1.069636 CCAGTGAGAAGTTTGCGCTTC 60.070 52.381 9.73 3.63 43.72 3.86
3673 4153 1.599071 CAGTGAGAAGTTTGCGCTTCA 59.401 47.619 9.73 0.00 45.28 3.02
3674 4154 1.869767 AGTGAGAAGTTTGCGCTTCAG 59.130 47.619 9.73 0.00 45.28 3.02
3675 4155 1.867233 GTGAGAAGTTTGCGCTTCAGA 59.133 47.619 9.73 0.00 45.28 3.27
3676 4156 2.287915 GTGAGAAGTTTGCGCTTCAGAA 59.712 45.455 9.73 0.00 45.28 3.02
3677 4157 2.545526 TGAGAAGTTTGCGCTTCAGAAG 59.454 45.455 9.73 5.72 45.28 2.85
3689 4169 3.996150 CTTCAGAAGCAAGCCTTTGAA 57.004 42.857 0.00 0.00 36.36 2.69
3690 4170 4.311816 CTTCAGAAGCAAGCCTTTGAAA 57.688 40.909 0.00 0.00 36.36 2.69
3691 4171 4.685924 CTTCAGAAGCAAGCCTTTGAAAA 58.314 39.130 0.00 0.00 36.36 2.29
3692 4172 4.734398 TCAGAAGCAAGCCTTTGAAAAA 57.266 36.364 0.00 0.00 36.36 1.94
3718 4198 8.424274 AACATTGTTTCAAGAAAAGTTGATCC 57.576 30.769 0.00 0.00 36.34 3.36
3719 4199 6.986231 ACATTGTTTCAAGAAAAGTTGATCCC 59.014 34.615 0.00 0.00 36.34 3.85
3720 4200 6.790232 TTGTTTCAAGAAAAGTTGATCCCT 57.210 33.333 0.00 0.00 36.34 4.20
3721 4201 6.790232 TGTTTCAAGAAAAGTTGATCCCTT 57.210 33.333 0.00 0.00 36.34 3.95
3722 4202 6.805713 TGTTTCAAGAAAAGTTGATCCCTTC 58.194 36.000 0.00 0.00 36.34 3.46
3723 4203 6.607198 TGTTTCAAGAAAAGTTGATCCCTTCT 59.393 34.615 0.00 0.00 36.34 2.85
3724 4204 7.124147 TGTTTCAAGAAAAGTTGATCCCTTCTT 59.876 33.333 0.00 0.00 36.34 2.52
3725 4205 8.630037 GTTTCAAGAAAAGTTGATCCCTTCTTA 58.370 33.333 0.00 0.00 36.34 2.10
3726 4206 7.745620 TCAAGAAAAGTTGATCCCTTCTTAC 57.254 36.000 0.00 0.00 35.20 2.34
3727 4207 6.426937 TCAAGAAAAGTTGATCCCTTCTTACG 59.573 38.462 0.00 0.00 35.20 3.18
3728 4208 5.866207 AGAAAAGTTGATCCCTTCTTACGT 58.134 37.500 0.00 0.00 0.00 3.57
3729 4209 6.296803 AGAAAAGTTGATCCCTTCTTACGTT 58.703 36.000 0.00 0.00 0.00 3.99
3730 4210 6.427242 AGAAAAGTTGATCCCTTCTTACGTTC 59.573 38.462 0.00 0.00 0.00 3.95
3731 4211 5.485209 AAGTTGATCCCTTCTTACGTTCT 57.515 39.130 0.00 0.00 0.00 3.01
3732 4212 5.485209 AGTTGATCCCTTCTTACGTTCTT 57.515 39.130 0.00 0.00 0.00 2.52
3733 4213 6.600882 AGTTGATCCCTTCTTACGTTCTTA 57.399 37.500 0.00 0.00 0.00 2.10
3734 4214 7.184067 AGTTGATCCCTTCTTACGTTCTTAT 57.816 36.000 0.00 0.00 0.00 1.73
3735 4215 7.621796 AGTTGATCCCTTCTTACGTTCTTATT 58.378 34.615 0.00 0.00 0.00 1.40
3736 4216 7.549488 AGTTGATCCCTTCTTACGTTCTTATTG 59.451 37.037 0.00 0.00 0.00 1.90
3737 4217 6.346096 TGATCCCTTCTTACGTTCTTATTGG 58.654 40.000 0.00 0.00 0.00 3.16
3738 4218 5.750352 TCCCTTCTTACGTTCTTATTGGT 57.250 39.130 0.00 0.00 0.00 3.67
3739 4219 5.727434 TCCCTTCTTACGTTCTTATTGGTC 58.273 41.667 0.00 0.00 0.00 4.02
3740 4220 5.482878 TCCCTTCTTACGTTCTTATTGGTCT 59.517 40.000 0.00 0.00 0.00 3.85
3741 4221 6.013984 TCCCTTCTTACGTTCTTATTGGTCTT 60.014 38.462 0.00 0.00 0.00 3.01
3742 4222 6.653740 CCCTTCTTACGTTCTTATTGGTCTTT 59.346 38.462 0.00 0.00 0.00 2.52
3743 4223 7.820872 CCCTTCTTACGTTCTTATTGGTCTTTA 59.179 37.037 0.00 0.00 0.00 1.85
3744 4224 8.870879 CCTTCTTACGTTCTTATTGGTCTTTAG 58.129 37.037 0.00 0.00 0.00 1.85
3745 4225 9.635520 CTTCTTACGTTCTTATTGGTCTTTAGA 57.364 33.333 0.00 0.00 0.00 2.10
3746 4226 9.635520 TTCTTACGTTCTTATTGGTCTTTAGAG 57.364 33.333 0.00 0.00 0.00 2.43
3747 4227 9.017509 TCTTACGTTCTTATTGGTCTTTAGAGA 57.982 33.333 0.00 0.00 0.00 3.10
3748 4228 9.635520 CTTACGTTCTTATTGGTCTTTAGAGAA 57.364 33.333 0.00 0.00 32.66 2.87
3749 4229 9.985730 TTACGTTCTTATTGGTCTTTAGAGAAA 57.014 29.630 0.00 0.00 32.66 2.52
3750 4230 8.307921 ACGTTCTTATTGGTCTTTAGAGAAAC 57.692 34.615 0.00 0.00 32.66 2.78
3751 4231 8.148999 ACGTTCTTATTGGTCTTTAGAGAAACT 58.851 33.333 0.00 0.00 32.66 2.66
3752 4232 9.635520 CGTTCTTATTGGTCTTTAGAGAAACTA 57.364 33.333 0.00 0.00 32.66 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 6.072838 CCAATAAGGTCTGTATCATGTCATGC 60.073 42.308 8.03 0.00 0.00 4.06
96 97 1.812571 CCATTTCTCACAACTTCCCCG 59.187 52.381 0.00 0.00 0.00 5.73
120 121 2.037251 ACCATGATCGGTACTATGGCAC 59.963 50.000 7.27 0.00 42.98 5.01
121 122 2.037121 CACCATGATCGGTACTATGGCA 59.963 50.000 7.27 0.00 42.98 4.92
123 124 2.632996 ACCACCATGATCGGTACTATGG 59.367 50.000 6.06 6.06 44.38 2.74
252 256 6.509418 ACAACGCTTTCATATGTAACCATT 57.491 33.333 1.90 0.00 32.29 3.16
271 275 6.146021 CCAAACAAAGCCTTGATATGAACAAC 59.854 38.462 1.09 0.00 36.33 3.32
297 301 8.810427 CAAATTTCATACGGATTTCCTTGATTG 58.190 33.333 0.00 0.00 0.00 2.67
349 353 9.949174 GTCAAATTTCCATTGTTGCTAAAAATT 57.051 25.926 0.00 0.00 0.00 1.82
516 521 6.647212 TCTTCTACGTGCACATCAATTTAG 57.353 37.500 18.64 5.26 0.00 1.85
653 665 2.049888 TTGACTTGCCATGTGACACA 57.950 45.000 11.41 11.41 0.00 3.72
654 666 3.435105 TTTTGACTTGCCATGTGACAC 57.565 42.857 0.00 0.00 0.00 3.67
803 818 5.872617 TGTCAATATACTTTCGGTGGACAAG 59.127 40.000 0.00 0.00 30.63 3.16
1147 1171 5.252969 TGTTGTAGTAGTTGTTGAGACGT 57.747 39.130 0.00 0.00 0.00 4.34
1214 1238 3.091545 GGAACCATGCTTTGAGATTGGA 58.908 45.455 0.00 0.00 0.00 3.53
1296 1320 2.564771 CTTCTCTGGACACTGCAACAA 58.435 47.619 0.00 0.00 0.00 2.83
1325 1349 2.288666 CCATGGTCACTATTGGAACCG 58.711 52.381 2.57 0.00 0.00 4.44
1390 1414 1.457346 CATGACAACCTCCTCTTGCC 58.543 55.000 0.00 0.00 0.00 4.52
1405 1429 5.588845 ACAAAATACCCATTCCTTCCATGA 58.411 37.500 0.00 0.00 0.00 3.07
1817 1852 7.968405 AGCACAATAATGAAATAAAGTCGGTTC 59.032 33.333 0.00 0.00 0.00 3.62
2299 2357 2.295909 TGAAGTACTTTTGTGCATGGCC 59.704 45.455 10.02 0.00 37.51 5.36
2425 2483 0.242017 GATTGCAAGGCGAGTGCTTT 59.758 50.000 4.94 0.68 41.70 3.51
2851 2922 1.933853 GACTGGCCTATTAGCGTTGTG 59.066 52.381 3.32 0.00 0.00 3.33
3143 3235 1.816074 AAAATGCCCGCTTCGTCTAA 58.184 45.000 0.00 0.00 0.00 2.10
3144 3236 1.735571 GAAAAATGCCCGCTTCGTCTA 59.264 47.619 0.00 0.00 0.00 2.59
3185 3658 9.871238 GTACTCTACAGTCCAATAGAATTGAAA 57.129 33.333 1.23 0.00 33.62 2.69
3210 3683 7.599998 GGCATTTCAAGATTCTATTGTGTTTGT 59.400 33.333 0.00 0.00 0.00 2.83
3211 3684 7.201376 CGGCATTTCAAGATTCTATTGTGTTTG 60.201 37.037 0.00 0.00 0.00 2.93
3236 3709 1.448540 CCAGTTGGCCTCTGTAGCG 60.449 63.158 20.89 7.54 0.00 4.26
3257 3730 2.614134 ACTTCTCACTGGCTCTAGGT 57.386 50.000 0.00 0.00 0.00 3.08
3269 3742 2.238942 TCTCAAGCGCAAACTTCTCA 57.761 45.000 11.47 0.00 0.00 3.27
3366 3844 8.737168 TGTTTCTCAACCCTAGATTGATATTG 57.263 34.615 9.14 0.68 35.57 1.90
3369 3847 7.610305 GGTTTGTTTCTCAACCCTAGATTGATA 59.390 37.037 9.14 1.67 35.99 2.15
3433 3913 6.670464 TCAGTCACTACCCTACATTTTATCCA 59.330 38.462 0.00 0.00 0.00 3.41
3454 3934 2.821969 GTGCATGGAGTGGAAATTCAGT 59.178 45.455 0.00 0.00 0.00 3.41
3456 3936 2.821378 CTGTGCATGGAGTGGAAATTCA 59.179 45.455 0.00 0.00 0.00 2.57
3470 3950 4.878397 GCCTAATGAAGTACTTCTGTGCAT 59.122 41.667 30.47 16.64 40.14 3.96
3474 3954 8.998277 TCTATAGCCTAATGAAGTACTTCTGT 57.002 34.615 30.47 21.65 40.14 3.41
3475 3955 8.026607 GCTCTATAGCCTAATGAAGTACTTCTG 58.973 40.741 30.47 19.05 43.40 3.02
3476 3956 8.117813 GCTCTATAGCCTAATGAAGTACTTCT 57.882 38.462 30.47 17.43 43.40 2.85
3493 3973 2.050144 TCCTGGCCCTTTGCTCTATAG 58.950 52.381 0.00 0.00 40.92 1.31
3494 3974 2.190398 TCCTGGCCCTTTGCTCTATA 57.810 50.000 0.00 0.00 40.92 1.31
3495 3975 1.213926 CTTCCTGGCCCTTTGCTCTAT 59.786 52.381 0.00 0.00 40.92 1.98
3496 3976 0.620556 CTTCCTGGCCCTTTGCTCTA 59.379 55.000 0.00 0.00 40.92 2.43
3497 3977 1.136329 TCTTCCTGGCCCTTTGCTCT 61.136 55.000 0.00 0.00 40.92 4.09
3498 3978 0.679321 CTCTTCCTGGCCCTTTGCTC 60.679 60.000 0.00 0.00 40.92 4.26
3499 3979 1.136329 TCTCTTCCTGGCCCTTTGCT 61.136 55.000 0.00 0.00 40.92 3.91
3500 3980 0.251341 TTCTCTTCCTGGCCCTTTGC 60.251 55.000 0.00 0.00 40.16 3.68
3501 3981 1.831580 CTTCTCTTCCTGGCCCTTTG 58.168 55.000 0.00 0.00 0.00 2.77
3502 3982 0.038890 GCTTCTCTTCCTGGCCCTTT 59.961 55.000 0.00 0.00 0.00 3.11
3503 3983 0.844221 AGCTTCTCTTCCTGGCCCTT 60.844 55.000 0.00 0.00 0.00 3.95
3504 3984 0.844221 AAGCTTCTCTTCCTGGCCCT 60.844 55.000 0.00 0.00 0.00 5.19
3505 3985 0.038890 AAAGCTTCTCTTCCTGGCCC 59.961 55.000 0.00 0.00 32.88 5.80
3506 3986 2.789409 TAAAGCTTCTCTTCCTGGCC 57.211 50.000 0.00 0.00 32.88 5.36
3507 3987 5.405797 CAAAATAAAGCTTCTCTTCCTGGC 58.594 41.667 0.00 0.00 32.88 4.85
3508 3988 5.711976 TCCAAAATAAAGCTTCTCTTCCTGG 59.288 40.000 0.00 1.63 32.88 4.45
3509 3989 6.656693 TCTCCAAAATAAAGCTTCTCTTCCTG 59.343 38.462 0.00 0.00 32.88 3.86
3510 3990 6.657117 GTCTCCAAAATAAAGCTTCTCTTCCT 59.343 38.462 0.00 0.00 32.88 3.36
3511 3991 6.431234 TGTCTCCAAAATAAAGCTTCTCTTCC 59.569 38.462 0.00 0.00 32.88 3.46
3512 3992 7.389053 TCTGTCTCCAAAATAAAGCTTCTCTTC 59.611 37.037 0.00 0.00 32.88 2.87
3513 3993 7.227156 TCTGTCTCCAAAATAAAGCTTCTCTT 58.773 34.615 0.00 0.00 36.34 2.85
3514 3994 6.773638 TCTGTCTCCAAAATAAAGCTTCTCT 58.226 36.000 0.00 0.00 0.00 3.10
3515 3995 6.652900 ACTCTGTCTCCAAAATAAAGCTTCTC 59.347 38.462 0.00 0.00 0.00 2.87
3516 3996 6.429385 CACTCTGTCTCCAAAATAAAGCTTCT 59.571 38.462 0.00 0.00 0.00 2.85
3517 3997 6.348868 CCACTCTGTCTCCAAAATAAAGCTTC 60.349 42.308 0.00 0.00 0.00 3.86
3518 3998 5.474876 CCACTCTGTCTCCAAAATAAAGCTT 59.525 40.000 0.00 0.00 0.00 3.74
3519 3999 5.006386 CCACTCTGTCTCCAAAATAAAGCT 58.994 41.667 0.00 0.00 0.00 3.74
3520 4000 4.156739 CCCACTCTGTCTCCAAAATAAAGC 59.843 45.833 0.00 0.00 0.00 3.51
3521 4001 4.156739 GCCCACTCTGTCTCCAAAATAAAG 59.843 45.833 0.00 0.00 0.00 1.85
3522 4002 4.079253 GCCCACTCTGTCTCCAAAATAAA 58.921 43.478 0.00 0.00 0.00 1.40
3523 4003 3.073798 TGCCCACTCTGTCTCCAAAATAA 59.926 43.478 0.00 0.00 0.00 1.40
3524 4004 2.642311 TGCCCACTCTGTCTCCAAAATA 59.358 45.455 0.00 0.00 0.00 1.40
3525 4005 1.425066 TGCCCACTCTGTCTCCAAAAT 59.575 47.619 0.00 0.00 0.00 1.82
3526 4006 0.843309 TGCCCACTCTGTCTCCAAAA 59.157 50.000 0.00 0.00 0.00 2.44
3527 4007 1.067295 ATGCCCACTCTGTCTCCAAA 58.933 50.000 0.00 0.00 0.00 3.28
3528 4008 1.067295 AATGCCCACTCTGTCTCCAA 58.933 50.000 0.00 0.00 0.00 3.53
3529 4009 1.003580 GAAATGCCCACTCTGTCTCCA 59.996 52.381 0.00 0.00 0.00 3.86
3530 4010 1.743996 GAAATGCCCACTCTGTCTCC 58.256 55.000 0.00 0.00 0.00 3.71
3531 4011 1.363744 CGAAATGCCCACTCTGTCTC 58.636 55.000 0.00 0.00 0.00 3.36
3532 4012 0.674895 GCGAAATGCCCACTCTGTCT 60.675 55.000 0.00 0.00 37.76 3.41
3533 4013 1.796796 GCGAAATGCCCACTCTGTC 59.203 57.895 0.00 0.00 37.76 3.51
3534 4014 3.987404 GCGAAATGCCCACTCTGT 58.013 55.556 0.00 0.00 37.76 3.41
3543 4023 6.359480 ACTAAAGTGTAATAGGCGAAATGC 57.641 37.500 0.00 0.00 45.38 3.56
3544 4024 8.325997 GTGTACTAAAGTGTAATAGGCGAAATG 58.674 37.037 0.00 0.00 0.00 2.32
3545 4025 7.221452 CGTGTACTAAAGTGTAATAGGCGAAAT 59.779 37.037 0.00 0.00 0.00 2.17
3546 4026 6.527722 CGTGTACTAAAGTGTAATAGGCGAAA 59.472 38.462 0.00 0.00 0.00 3.46
3547 4027 6.029607 CGTGTACTAAAGTGTAATAGGCGAA 58.970 40.000 0.00 0.00 0.00 4.70
3548 4028 5.353956 TCGTGTACTAAAGTGTAATAGGCGA 59.646 40.000 0.00 0.00 0.00 5.54
3549 4029 5.572211 TCGTGTACTAAAGTGTAATAGGCG 58.428 41.667 0.00 0.00 0.00 5.52
3550 4030 7.703621 TGAATCGTGTACTAAAGTGTAATAGGC 59.296 37.037 0.00 0.00 0.00 3.93
3551 4031 9.577110 TTGAATCGTGTACTAAAGTGTAATAGG 57.423 33.333 0.00 0.00 0.00 2.57
3555 4035 9.701098 AGAATTGAATCGTGTACTAAAGTGTAA 57.299 29.630 0.00 0.00 0.00 2.41
3557 4037 9.871238 ATAGAATTGAATCGTGTACTAAAGTGT 57.129 29.630 0.00 0.00 0.00 3.55
3561 4041 9.104965 CCCAATAGAATTGAATCGTGTACTAAA 57.895 33.333 1.23 0.00 0.00 1.85
3562 4042 7.225931 GCCCAATAGAATTGAATCGTGTACTAA 59.774 37.037 1.23 0.00 0.00 2.24
3563 4043 6.704493 GCCCAATAGAATTGAATCGTGTACTA 59.296 38.462 1.23 0.00 0.00 1.82
3564 4044 5.527582 GCCCAATAGAATTGAATCGTGTACT 59.472 40.000 1.23 0.00 0.00 2.73
3565 4045 5.277828 GGCCCAATAGAATTGAATCGTGTAC 60.278 44.000 0.00 0.00 0.00 2.90
3566 4046 4.819630 GGCCCAATAGAATTGAATCGTGTA 59.180 41.667 0.00 0.00 0.00 2.90
3567 4047 3.632145 GGCCCAATAGAATTGAATCGTGT 59.368 43.478 0.00 0.00 0.00 4.49
3568 4048 3.631686 TGGCCCAATAGAATTGAATCGTG 59.368 43.478 0.00 0.00 0.00 4.35
3569 4049 3.897239 TGGCCCAATAGAATTGAATCGT 58.103 40.909 0.00 0.00 0.00 3.73
3570 4050 5.939883 TCTATGGCCCAATAGAATTGAATCG 59.060 40.000 9.77 0.00 36.45 3.34
3571 4051 6.944862 ACTCTATGGCCCAATAGAATTGAATC 59.055 38.462 12.55 0.00 38.40 2.52
3572 4052 6.856757 ACTCTATGGCCCAATAGAATTGAAT 58.143 36.000 12.55 0.00 38.40 2.57
3573 4053 6.266131 ACTCTATGGCCCAATAGAATTGAA 57.734 37.500 12.55 0.00 38.40 2.69
3574 4054 5.912149 ACTCTATGGCCCAATAGAATTGA 57.088 39.130 12.55 0.00 38.40 2.57
3575 4055 9.739276 TTTATACTCTATGGCCCAATAGAATTG 57.261 33.333 12.55 5.62 38.40 2.32
3576 4056 9.740710 GTTTATACTCTATGGCCCAATAGAATT 57.259 33.333 12.55 6.67 38.40 2.17
3577 4057 8.890472 TGTTTATACTCTATGGCCCAATAGAAT 58.110 33.333 12.55 6.74 38.40 2.40
3578 4058 8.154856 GTGTTTATACTCTATGGCCCAATAGAA 58.845 37.037 12.55 1.78 38.40 2.10
3579 4059 7.291416 TGTGTTTATACTCTATGGCCCAATAGA 59.709 37.037 11.32 11.32 36.92 1.98
3580 4060 7.450074 TGTGTTTATACTCTATGGCCCAATAG 58.550 38.462 0.00 1.41 0.00 1.73
3581 4061 7.381789 TGTGTTTATACTCTATGGCCCAATA 57.618 36.000 0.00 0.00 0.00 1.90
3582 4062 6.260700 TGTGTTTATACTCTATGGCCCAAT 57.739 37.500 0.00 0.00 0.00 3.16
3583 4063 5.702065 TGTGTTTATACTCTATGGCCCAA 57.298 39.130 0.00 0.00 0.00 4.12
3584 4064 5.702065 TTGTGTTTATACTCTATGGCCCA 57.298 39.130 0.00 0.00 0.00 5.36
3585 4065 7.676947 TCTATTGTGTTTATACTCTATGGCCC 58.323 38.462 0.00 0.00 0.00 5.80
3586 4066 9.726438 ATTCTATTGTGTTTATACTCTATGGCC 57.274 33.333 0.00 0.00 0.00 5.36
3597 4077 8.131100 CGCATTCCAAGATTCTATTGTGTTTAT 58.869 33.333 0.00 0.00 0.00 1.40
3598 4078 7.335673 TCGCATTCCAAGATTCTATTGTGTTTA 59.664 33.333 0.00 0.00 0.00 2.01
3599 4079 6.150976 TCGCATTCCAAGATTCTATTGTGTTT 59.849 34.615 0.00 0.00 0.00 2.83
3600 4080 5.647658 TCGCATTCCAAGATTCTATTGTGTT 59.352 36.000 0.00 0.00 0.00 3.32
3601 4081 5.065218 GTCGCATTCCAAGATTCTATTGTGT 59.935 40.000 0.00 0.00 0.00 3.72
3602 4082 5.295292 AGTCGCATTCCAAGATTCTATTGTG 59.705 40.000 0.00 0.00 0.00 3.33
3603 4083 5.431765 AGTCGCATTCCAAGATTCTATTGT 58.568 37.500 0.00 0.00 0.00 2.71
3604 4084 5.998454 AGTCGCATTCCAAGATTCTATTG 57.002 39.130 0.00 0.00 0.00 1.90
3605 4085 6.582636 TGTAGTCGCATTCCAAGATTCTATT 58.417 36.000 0.00 0.00 0.00 1.73
3606 4086 6.040955 TCTGTAGTCGCATTCCAAGATTCTAT 59.959 38.462 0.00 0.00 0.00 1.98
3607 4087 5.359860 TCTGTAGTCGCATTCCAAGATTCTA 59.640 40.000 0.00 0.00 0.00 2.10
3608 4088 4.160439 TCTGTAGTCGCATTCCAAGATTCT 59.840 41.667 0.00 0.00 0.00 2.40
3609 4089 4.433615 TCTGTAGTCGCATTCCAAGATTC 58.566 43.478 0.00 0.00 0.00 2.52
3610 4090 4.437239 CTCTGTAGTCGCATTCCAAGATT 58.563 43.478 0.00 0.00 0.00 2.40
3611 4091 3.181471 CCTCTGTAGTCGCATTCCAAGAT 60.181 47.826 0.00 0.00 0.00 2.40
3612 4092 2.166459 CCTCTGTAGTCGCATTCCAAGA 59.834 50.000 0.00 0.00 0.00 3.02
3613 4093 2.544685 CCTCTGTAGTCGCATTCCAAG 58.455 52.381 0.00 0.00 0.00 3.61
3614 4094 1.405526 GCCTCTGTAGTCGCATTCCAA 60.406 52.381 0.00 0.00 0.00 3.53
3615 4095 0.175760 GCCTCTGTAGTCGCATTCCA 59.824 55.000 0.00 0.00 0.00 3.53
3616 4096 0.530870 GGCCTCTGTAGTCGCATTCC 60.531 60.000 0.00 0.00 0.00 3.01
3617 4097 0.175760 TGGCCTCTGTAGTCGCATTC 59.824 55.000 3.32 0.00 0.00 2.67
3618 4098 0.613260 TTGGCCTCTGTAGTCGCATT 59.387 50.000 3.32 0.00 0.00 3.56
3619 4099 0.108138 GTTGGCCTCTGTAGTCGCAT 60.108 55.000 3.32 0.00 0.00 4.73
3620 4100 1.185618 AGTTGGCCTCTGTAGTCGCA 61.186 55.000 3.32 0.00 0.00 5.10
3621 4101 0.815734 TAGTTGGCCTCTGTAGTCGC 59.184 55.000 3.32 0.00 0.00 5.19
3622 4102 2.366533 TCTAGTTGGCCTCTGTAGTCG 58.633 52.381 3.32 0.00 0.00 4.18
3623 4103 3.319689 GGATCTAGTTGGCCTCTGTAGTC 59.680 52.174 3.32 0.00 0.00 2.59
3624 4104 3.301274 GGATCTAGTTGGCCTCTGTAGT 58.699 50.000 3.32 0.00 0.00 2.73
3625 4105 2.630580 GGGATCTAGTTGGCCTCTGTAG 59.369 54.545 3.32 0.00 0.00 2.74
3626 4106 2.247635 AGGGATCTAGTTGGCCTCTGTA 59.752 50.000 3.32 0.00 0.00 2.74
3627 4107 1.008938 AGGGATCTAGTTGGCCTCTGT 59.991 52.381 3.32 0.00 0.00 3.41
3628 4108 1.799933 AGGGATCTAGTTGGCCTCTG 58.200 55.000 3.32 0.00 0.00 3.35
3629 4109 2.792370 TCTAGGGATCTAGTTGGCCTCT 59.208 50.000 3.32 5.19 42.66 3.69
3630 4110 3.161866 CTCTAGGGATCTAGTTGGCCTC 58.838 54.545 3.32 0.00 42.66 4.70
3631 4111 2.758295 GCTCTAGGGATCTAGTTGGCCT 60.758 54.545 3.32 0.00 42.66 5.19
3632 4112 1.621317 GCTCTAGGGATCTAGTTGGCC 59.379 57.143 0.00 0.00 42.66 5.36
3633 4113 1.621317 GGCTCTAGGGATCTAGTTGGC 59.379 57.143 0.00 0.00 42.66 4.52
3634 4114 2.896685 CTGGCTCTAGGGATCTAGTTGG 59.103 54.545 0.00 0.00 42.66 3.77
3635 4115 3.320541 CACTGGCTCTAGGGATCTAGTTG 59.679 52.174 0.00 0.00 42.66 3.16
3636 4116 3.205507 TCACTGGCTCTAGGGATCTAGTT 59.794 47.826 0.00 0.00 42.66 2.24
3637 4117 2.786445 TCACTGGCTCTAGGGATCTAGT 59.214 50.000 0.00 0.00 42.66 2.57
3638 4118 3.073798 TCTCACTGGCTCTAGGGATCTAG 59.926 52.174 0.00 0.00 43.27 2.43
3639 4119 3.056832 TCTCACTGGCTCTAGGGATCTA 58.943 50.000 0.00 0.00 27.95 1.98
3640 4120 1.856259 TCTCACTGGCTCTAGGGATCT 59.144 52.381 0.00 0.00 27.95 2.75
3641 4121 2.373335 TCTCACTGGCTCTAGGGATC 57.627 55.000 0.00 0.00 27.95 3.36
3642 4122 2.023501 ACTTCTCACTGGCTCTAGGGAT 60.024 50.000 0.00 0.00 27.95 3.85
3643 4123 1.359474 ACTTCTCACTGGCTCTAGGGA 59.641 52.381 0.00 0.00 0.00 4.20
3644 4124 1.859302 ACTTCTCACTGGCTCTAGGG 58.141 55.000 0.00 0.00 0.00 3.53
3645 4125 3.594134 CAAACTTCTCACTGGCTCTAGG 58.406 50.000 0.00 0.00 0.00 3.02
3646 4126 2.999355 GCAAACTTCTCACTGGCTCTAG 59.001 50.000 0.00 0.00 0.00 2.43
3647 4127 2.610479 CGCAAACTTCTCACTGGCTCTA 60.610 50.000 0.00 0.00 0.00 2.43
3648 4128 1.875576 CGCAAACTTCTCACTGGCTCT 60.876 52.381 0.00 0.00 0.00 4.09
3649 4129 0.514691 CGCAAACTTCTCACTGGCTC 59.485 55.000 0.00 0.00 0.00 4.70
3650 4130 1.510480 GCGCAAACTTCTCACTGGCT 61.510 55.000 0.30 0.00 0.00 4.75
3651 4131 1.081840 GCGCAAACTTCTCACTGGC 60.082 57.895 0.30 0.00 0.00 4.85
3652 4132 0.947244 AAGCGCAAACTTCTCACTGG 59.053 50.000 11.47 0.00 0.00 4.00
3653 4133 1.599071 TGAAGCGCAAACTTCTCACTG 59.401 47.619 11.47 0.00 45.20 3.66
3654 4134 1.869767 CTGAAGCGCAAACTTCTCACT 59.130 47.619 11.47 0.00 45.20 3.41
3655 4135 1.867233 TCTGAAGCGCAAACTTCTCAC 59.133 47.619 11.47 0.00 45.20 3.51
3656 4136 2.238942 TCTGAAGCGCAAACTTCTCA 57.761 45.000 11.47 0.00 45.20 3.27
3657 4137 2.664151 GCTTCTGAAGCGCAAACTTCTC 60.664 50.000 24.86 0.00 45.74 2.87
3658 4138 1.265365 GCTTCTGAAGCGCAAACTTCT 59.735 47.619 24.86 0.00 45.74 2.85
3659 4139 1.679514 GCTTCTGAAGCGCAAACTTC 58.320 50.000 24.86 4.99 45.74 3.01
3660 4140 3.853623 GCTTCTGAAGCGCAAACTT 57.146 47.368 24.86 0.00 45.74 2.66
3669 4149 3.996150 TTCAAAGGCTTGCTTCTGAAG 57.004 42.857 13.02 13.02 32.14 3.02
3670 4150 4.734398 TTTTCAAAGGCTTGCTTCTGAA 57.266 36.364 0.00 3.68 32.14 3.02
3671 4151 4.734398 TTTTTCAAAGGCTTGCTTCTGA 57.266 36.364 0.00 0.00 32.14 3.27
3692 4172 8.882736 GGATCAACTTTTCTTGAAACAATGTTT 58.117 29.630 11.55 11.55 33.85 2.83
3693 4173 7.495606 GGGATCAACTTTTCTTGAAACAATGTT 59.504 33.333 0.00 0.00 33.85 2.71
3694 4174 6.986231 GGGATCAACTTTTCTTGAAACAATGT 59.014 34.615 0.00 0.00 33.85 2.71
3695 4175 7.212274 AGGGATCAACTTTTCTTGAAACAATG 58.788 34.615 0.00 0.00 33.85 2.82
3696 4176 7.365497 AGGGATCAACTTTTCTTGAAACAAT 57.635 32.000 0.00 0.00 33.85 2.71
3697 4177 6.790232 AGGGATCAACTTTTCTTGAAACAA 57.210 33.333 0.00 0.00 33.85 2.83
3698 4178 6.607198 AGAAGGGATCAACTTTTCTTGAAACA 59.393 34.615 0.00 0.00 33.85 2.83
3699 4179 7.043961 AGAAGGGATCAACTTTTCTTGAAAC 57.956 36.000 0.00 0.00 33.85 2.78
3700 4180 7.660030 AAGAAGGGATCAACTTTTCTTGAAA 57.340 32.000 0.00 0.00 36.89 2.69
3701 4181 7.041372 CGTAAGAAGGGATCAACTTTTCTTGAA 60.041 37.037 14.24 0.00 38.26 2.69
3702 4182 6.426937 CGTAAGAAGGGATCAACTTTTCTTGA 59.573 38.462 14.24 0.00 38.26 3.02
3703 4183 6.204882 ACGTAAGAAGGGATCAACTTTTCTTG 59.795 38.462 14.24 6.20 38.26 3.02
3704 4184 6.296803 ACGTAAGAAGGGATCAACTTTTCTT 58.703 36.000 0.00 4.99 40.22 2.52
3705 4185 5.866207 ACGTAAGAAGGGATCAACTTTTCT 58.134 37.500 0.00 0.00 43.62 2.52
3706 4186 6.427242 AGAACGTAAGAAGGGATCAACTTTTC 59.573 38.462 0.00 0.00 43.62 2.29
3707 4187 6.296803 AGAACGTAAGAAGGGATCAACTTTT 58.703 36.000 0.00 0.00 43.62 2.27
3708 4188 5.866207 AGAACGTAAGAAGGGATCAACTTT 58.134 37.500 0.00 0.00 43.62 2.66
3709 4189 5.485209 AGAACGTAAGAAGGGATCAACTT 57.515 39.130 1.94 1.94 43.62 2.66
3710 4190 5.485209 AAGAACGTAAGAAGGGATCAACT 57.515 39.130 0.00 0.00 43.62 3.16
3711 4191 7.201617 CCAATAAGAACGTAAGAAGGGATCAAC 60.202 40.741 0.00 0.00 43.62 3.18
3712 4192 6.821665 CCAATAAGAACGTAAGAAGGGATCAA 59.178 38.462 0.00 0.00 43.62 2.57
3713 4193 6.070424 ACCAATAAGAACGTAAGAAGGGATCA 60.070 38.462 0.00 0.00 43.62 2.92
3714 4194 6.346896 ACCAATAAGAACGTAAGAAGGGATC 58.653 40.000 0.00 0.00 43.62 3.36
3715 4195 6.156429 AGACCAATAAGAACGTAAGAAGGGAT 59.844 38.462 0.00 0.00 43.62 3.85
3716 4196 5.482878 AGACCAATAAGAACGTAAGAAGGGA 59.517 40.000 0.00 0.00 43.62 4.20
3717 4197 5.731591 AGACCAATAAGAACGTAAGAAGGG 58.268 41.667 0.00 0.00 43.62 3.95
3718 4198 7.668525 AAAGACCAATAAGAACGTAAGAAGG 57.331 36.000 0.00 0.00 43.62 3.46
3719 4199 9.635520 TCTAAAGACCAATAAGAACGTAAGAAG 57.364 33.333 0.00 0.00 43.62 2.85
3720 4200 9.635520 CTCTAAAGACCAATAAGAACGTAAGAA 57.364 33.333 0.00 0.00 43.62 2.52
3721 4201 9.017509 TCTCTAAAGACCAATAAGAACGTAAGA 57.982 33.333 0.00 0.00 43.62 2.10
3723 4203 9.985730 TTTCTCTAAAGACCAATAAGAACGTAA 57.014 29.630 0.00 0.00 0.00 3.18
3724 4204 9.415544 GTTTCTCTAAAGACCAATAAGAACGTA 57.584 33.333 0.00 0.00 0.00 3.57
3725 4205 8.148999 AGTTTCTCTAAAGACCAATAAGAACGT 58.851 33.333 0.00 0.00 0.00 3.99
3726 4206 8.535690 AGTTTCTCTAAAGACCAATAAGAACG 57.464 34.615 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.