Multiple sequence alignment - TraesCS5B01G456300

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 TraesCS5B01G456300 chr5B 100.000 3546 0 0 1 3546 631392909 631389364 0.000000e+00 6549.0
1 TraesCS5B01G456300 chr5B 91.648 3101 141 42 20 3039 626252106 626249043 0.000000e+00 4183.0
2 TraesCS5B01G456300 chr5B 90.674 193 16 2 3065 3255 626247112 626246920 4.540000e-64 255.0
3 TraesCS5B01G456300 chr5A 96.480 1307 42 1 911 2213 631277370 631276064 0.000000e+00 2156.0
4 TraesCS5B01G456300 chr5A 88.050 636 46 10 1 611 631278856 631278226 0.000000e+00 726.0
5 TraesCS5B01G456300 chr5A 86.983 653 47 14 2216 2836 631268281 631267635 0.000000e+00 701.0
6 TraesCS5B01G456300 chr5A 93.789 161 10 0 744 904 631277723 631277563 3.540000e-60 243.0
7 TraesCS5B01G456300 chr5A 90.580 138 9 1 2835 2968 631267480 631267343 2.810000e-41 180.0
8 TraesCS5B01G456300 chr5A 89.916 119 10 1 3208 3324 631265957 631265839 6.130000e-33 152.0
9 TraesCS5B01G456300 chr5A 93.976 83 5 0 3071 3153 631266573 631266491 3.720000e-25 126.0
10 TraesCS5B01G456300 chr1B 79.571 1958 286 52 1085 2973 112865985 112864073 0.000000e+00 1295.0
11 TraesCS5B01G456300 chr1B 76.617 1531 261 65 960 2426 113026363 113024866 0.000000e+00 754.0
12 TraesCS5B01G456300 chr1B 74.462 1394 279 54 1085 2431 113516574 113515211 6.740000e-147 531.0
13 TraesCS5B01G456300 chr1B 80.451 133 25 1 2294 2426 63218030 63217899 2.250000e-17 100.0
14 TraesCS5B01G456300 chr1A 79.298 1995 281 70 1068 2979 71724985 71723040 0.000000e+00 1275.0
15 TraesCS5B01G456300 chr1A 74.016 1397 277 64 1077 2427 32191063 32192419 1.140000e-134 490.0
16 TraesCS5B01G456300 chr1D 82.436 1412 200 22 1068 2449 71639747 71638354 0.000000e+00 1190.0
17 TraesCS5B01G456300 chr1D 77.141 1518 260 58 960 2426 71770093 71768612 0.000000e+00 800.0
18 TraesCS5B01G456300 chr1D 90.141 142 14 0 1077 1218 72501864 72501723 6.050000e-43 185.0
19 TraesCS5B01G456300 chr6B 78.151 238 38 9 1086 1316 145570263 145570033 4.770000e-29 139.0
20 TraesCS5B01G456300 chr3A 78.922 204 35 7 130 332 600677126 600677322 7.990000e-27 132.0
21 TraesCS5B01G456300 chr7B 79.630 162 28 3 170 327 712738597 712738757 1.040000e-20 111.0
22 TraesCS5B01G456300 chr4A 89.583 48 3 2 1833 1879 613681380 613681426 3.820000e-05 60.2


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 TraesCS5B01G456300 chr5B 631389364 631392909 3545 True 6549.000000 6549 100.00000 1 3546 1 chr5B.!!$R1 3545
1 TraesCS5B01G456300 chr5B 626246920 626252106 5186 True 2219.000000 4183 91.16100 20 3255 2 chr5B.!!$R2 3235
2 TraesCS5B01G456300 chr5A 631276064 631278856 2792 True 1041.666667 2156 92.77300 1 2213 3 chr5A.!!$R2 2212
3 TraesCS5B01G456300 chr5A 631265839 631268281 2442 True 289.750000 701 90.36375 2216 3324 4 chr5A.!!$R1 1108
4 TraesCS5B01G456300 chr1B 112864073 112865985 1912 True 1295.000000 1295 79.57100 1085 2973 1 chr1B.!!$R2 1888
5 TraesCS5B01G456300 chr1B 113024866 113026363 1497 True 754.000000 754 76.61700 960 2426 1 chr1B.!!$R3 1466
6 TraesCS5B01G456300 chr1B 113515211 113516574 1363 True 531.000000 531 74.46200 1085 2431 1 chr1B.!!$R4 1346
7 TraesCS5B01G456300 chr1A 71723040 71724985 1945 True 1275.000000 1275 79.29800 1068 2979 1 chr1A.!!$R1 1911
8 TraesCS5B01G456300 chr1A 32191063 32192419 1356 False 490.000000 490 74.01600 1077 2427 1 chr1A.!!$F1 1350
9 TraesCS5B01G456300 chr1D 71638354 71639747 1393 True 1190.000000 1190 82.43600 1068 2449 1 chr1D.!!$R1 1381
10 TraesCS5B01G456300 chr1D 71768612 71770093 1481 True 800.000000 800 77.14100 960 2426 1 chr1D.!!$R2 1466

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
982 1578 1.635487 CCTCCCATCCAACTTCTCCAA 59.365 52.381 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2738 3514 0.779997 AGGATGGGCCAAAGACAACT 59.22 50.0 11.89 0.0 40.02 3.16 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
31 33 8.070171 CACAAAAAGAATAATACTATGCGAGGG 58.930 37.037 0.00 0.00 0.00 4.30
47 49 2.654912 GGGTTCGAACACGTGAGCG 61.655 63.158 28.24 23.25 44.93 5.03
48 50 2.654912 GGTTCGAACACGTGAGCGG 61.655 63.158 28.24 8.39 43.45 5.52
85 87 4.341235 AGCGAGCAGATAACCACTATAACA 59.659 41.667 0.00 0.00 0.00 2.41
203 207 9.931210 GTACTGTAGCGAGCATTTATTTAAAAT 57.069 29.630 0.00 0.00 0.00 1.82
286 295 9.816354 GAACAATATGTTAAAATTGGCAGGTAT 57.184 29.630 9.83 0.00 41.28 2.73
333 342 5.463061 AGCAAACATTGTTTCGAATCTTTGG 59.537 36.000 11.78 0.00 27.80 3.28
405 432 8.825667 TGGAACAAGAACATAAATTTAAAGCC 57.174 30.769 1.21 0.00 31.92 4.35
469 497 9.617523 ATCCTGAACACTTTTTGAAAATTTGAT 57.382 25.926 6.15 0.00 0.00 2.57
578 613 3.897325 TGCATCATCGTCTAACCGTATC 58.103 45.455 0.00 0.00 0.00 2.24
579 614 3.316868 TGCATCATCGTCTAACCGTATCA 59.683 43.478 0.00 0.00 0.00 2.15
592 627 2.224066 ACCGTATCAATAGCAGTGCTCC 60.224 50.000 23.64 1.20 40.44 4.70
655 718 4.463879 CTCACGAGGGCCTGCTGG 62.464 72.222 12.95 5.03 0.00 4.85
718 785 3.152400 ATACGACCGGGGCTGGAC 61.152 66.667 6.32 0.00 0.00 4.02
774 1179 2.745884 CATTGGGTCGCAGCGGAA 60.746 61.111 16.42 3.47 0.00 4.30
945 1537 4.888325 CCGGCTCCCCCTCCTCAT 62.888 72.222 0.00 0.00 0.00 2.90
982 1578 1.635487 CCTCCCATCCAACTTCTCCAA 59.365 52.381 0.00 0.00 0.00 3.53
1220 1840 2.419159 CCTCGCCTCTCAACATTGATGA 60.419 50.000 0.00 0.00 36.46 2.92
1229 1849 6.349243 TCTCAACATTGATGATGCCTTTTT 57.651 33.333 0.00 0.00 39.47 1.94
1671 2315 8.956426 TCACTTAAATTGGAGGATATTTGTGAC 58.044 33.333 0.00 0.00 29.29 3.67
1939 2600 6.491403 ACCAACAGCAGAAATAATCTTGACTT 59.509 34.615 0.00 0.00 35.73 3.01
1940 2601 7.025963 CCAACAGCAGAAATAATCTTGACTTC 58.974 38.462 0.00 0.00 35.73 3.01
2258 2981 2.808543 CAGTGGGAGAAACACAGCTTAC 59.191 50.000 0.00 0.00 41.21 2.34
2301 3039 4.240175 GTCAATACGACCCACTAGATCC 57.760 50.000 0.00 0.00 38.85 3.36
2302 3040 3.890147 GTCAATACGACCCACTAGATCCT 59.110 47.826 0.00 0.00 38.85 3.24
2303 3041 3.889538 TCAATACGACCCACTAGATCCTG 59.110 47.826 0.00 0.00 0.00 3.86
2304 3042 3.596940 ATACGACCCACTAGATCCTGT 57.403 47.619 0.00 0.00 0.00 4.00
2305 3043 1.765230 ACGACCCACTAGATCCTGTC 58.235 55.000 0.00 0.00 0.00 3.51
2399 3137 4.887748 TGCCAAGTTCTTTGTTTTGAACA 58.112 34.783 8.28 0.00 43.38 3.18
2541 3303 4.214545 TGCAATTGGAATTCGTACGAAGTT 59.785 37.500 31.68 24.55 37.78 2.66
2554 3316 6.722301 TCGTACGAAGTTATAATGAGGAGTG 58.278 40.000 17.11 0.00 37.78 3.51
2582 3344 2.173519 CCCCATGATTTGTCAACTGCT 58.826 47.619 0.00 0.00 0.00 4.24
2660 3433 3.998341 GCAATGGTTTGTCAATGCTGATT 59.002 39.130 1.64 0.00 39.65 2.57
2674 3447 2.159352 TGCTGATTCCATTGATGTTGCG 60.159 45.455 0.00 0.00 0.00 4.85
2700 3475 6.415573 ACAAGGTTGATTATACCTGAGGAAC 58.584 40.000 4.99 0.00 45.17 3.62
2738 3514 8.515695 ACTTGATTGATATGCTTGAAGATTGA 57.484 30.769 0.00 0.00 0.00 2.57
2761 3541 3.085952 TGTCTTTGGCCCATCCTTAAG 57.914 47.619 0.00 0.00 35.26 1.85
2800 3597 5.643348 TCCATTTGTACTACTGAACATGCAG 59.357 40.000 0.00 0.00 41.63 4.41
2880 3841 7.275341 TGCTATATTTTGTTACAGTTGCATTGC 59.725 33.333 0.46 0.46 0.00 3.56
2940 3901 2.351447 CCAGTTTCAGTCAGCAATGCAG 60.351 50.000 8.35 0.00 0.00 4.41
2945 3906 1.875514 TCAGTCAGCAATGCAGTGTTC 59.124 47.619 16.47 0.00 0.00 3.18
2979 3940 4.818534 TGCTTCTGTTTCAGTTAGCAAG 57.181 40.909 18.50 8.06 42.25 4.01
2981 3942 4.035558 TGCTTCTGTTTCAGTTAGCAAGTG 59.964 41.667 18.50 0.00 42.25 3.16
2991 3952 6.509418 TCAGTTAGCAAGTGTTCAAAACTT 57.491 33.333 0.00 0.00 38.40 2.66
3034 4003 1.002134 CCTTGTGAATGTCCCGCCT 60.002 57.895 0.00 0.00 0.00 5.52
3035 4004 1.308069 CCTTGTGAATGTCCCGCCTG 61.308 60.000 0.00 0.00 0.00 4.85
3051 4033 2.159156 CGCCTGGTATGTAACTAGCACA 60.159 50.000 0.00 0.62 35.43 4.57
3061 4043 0.758734 AACTAGCACAGTGGCTCACA 59.241 50.000 9.08 0.00 44.54 3.58
3078 6208 2.221676 CACGTTTGTGCGAGCAGTA 58.778 52.632 0.00 0.00 39.67 2.74
3181 6814 5.977129 GCGAAATGTATTGTTCTTTATGGGG 59.023 40.000 0.00 0.00 0.00 4.96
3185 6818 7.645058 AATGTATTGTTCTTTATGGGGTGAG 57.355 36.000 0.00 0.00 0.00 3.51
3199 6832 1.168714 GGTGAGCCCTTGTGCTTTAG 58.831 55.000 0.00 0.00 42.95 1.85
3203 6836 3.317993 GTGAGCCCTTGTGCTTTAGAAAA 59.682 43.478 0.00 0.00 42.95 2.29
3297 6932 2.940994 TGGCCACTAGTGCAGTTAAA 57.059 45.000 17.86 0.00 34.26 1.52
3305 6940 7.095187 GGCCACTAGTGCAGTTAAATCATATAC 60.095 40.741 17.86 0.00 34.26 1.47
3324 6959 8.848182 TCATATACAAACGGTTTAAACACCTTT 58.152 29.630 19.57 10.14 34.22 3.11
3325 6960 9.120422 CATATACAAACGGTTTAAACACCTTTC 57.880 33.333 19.57 0.73 34.22 2.62
3326 6961 4.413969 ACAAACGGTTTAAACACCTTTCG 58.586 39.130 19.57 14.18 34.22 3.46
3327 6962 2.761392 ACGGTTTAAACACCTTTCGC 57.239 45.000 19.57 0.00 34.22 4.70
3328 6963 2.291365 ACGGTTTAAACACCTTTCGCT 58.709 42.857 19.57 2.31 34.22 4.93
3329 6964 2.032426 ACGGTTTAAACACCTTTCGCTG 59.968 45.455 19.57 0.00 34.22 5.18
3330 6965 2.288458 CGGTTTAAACACCTTTCGCTGA 59.712 45.455 19.57 0.00 34.22 4.26
3331 6966 3.624900 GGTTTAAACACCTTTCGCTGAC 58.375 45.455 19.57 0.00 33.50 3.51
3332 6967 3.065648 GGTTTAAACACCTTTCGCTGACA 59.934 43.478 19.57 0.00 33.50 3.58
3333 6968 3.955771 TTAAACACCTTTCGCTGACAC 57.044 42.857 0.00 0.00 0.00 3.67
3334 6969 1.745232 AAACACCTTTCGCTGACACA 58.255 45.000 0.00 0.00 0.00 3.72
3335 6970 1.299541 AACACCTTTCGCTGACACAG 58.700 50.000 0.00 0.00 34.12 3.66
3336 6971 0.178068 ACACCTTTCGCTGACACAGT 59.822 50.000 0.00 0.00 33.43 3.55
3337 6972 0.861837 CACCTTTCGCTGACACAGTC 59.138 55.000 0.00 0.00 33.43 3.51
3338 6973 0.249911 ACCTTTCGCTGACACAGTCC 60.250 55.000 0.00 0.00 33.43 3.85
3339 6974 0.951040 CCTTTCGCTGACACAGTCCC 60.951 60.000 0.00 0.00 33.43 4.46
3340 6975 0.249868 CTTTCGCTGACACAGTCCCA 60.250 55.000 0.00 0.00 33.43 4.37
3341 6976 0.396435 TTTCGCTGACACAGTCCCAT 59.604 50.000 0.00 0.00 33.43 4.00
3342 6977 0.037326 TTCGCTGACACAGTCCCATC 60.037 55.000 0.00 0.00 33.43 3.51
3343 6978 1.448540 CGCTGACACAGTCCCATCC 60.449 63.158 0.00 0.00 33.43 3.51
3344 6979 1.078143 GCTGACACAGTCCCATCCC 60.078 63.158 0.00 0.00 33.43 3.85
3345 6980 1.841302 GCTGACACAGTCCCATCCCA 61.841 60.000 0.00 0.00 33.43 4.37
3346 6981 0.914644 CTGACACAGTCCCATCCCAT 59.085 55.000 0.00 0.00 0.00 4.00
3347 6982 2.118679 CTGACACAGTCCCATCCCATA 58.881 52.381 0.00 0.00 0.00 2.74
3348 6983 1.837439 TGACACAGTCCCATCCCATAC 59.163 52.381 0.00 0.00 0.00 2.39
3349 6984 0.830648 ACACAGTCCCATCCCATACG 59.169 55.000 0.00 0.00 0.00 3.06
3350 6985 1.119684 CACAGTCCCATCCCATACGA 58.880 55.000 0.00 0.00 0.00 3.43
3351 6986 1.694150 CACAGTCCCATCCCATACGAT 59.306 52.381 0.00 0.00 0.00 3.73
3352 6987 2.897326 CACAGTCCCATCCCATACGATA 59.103 50.000 0.00 0.00 0.00 2.92
3353 6988 2.897969 ACAGTCCCATCCCATACGATAC 59.102 50.000 0.00 0.00 0.00 2.24
3354 6989 2.897326 CAGTCCCATCCCATACGATACA 59.103 50.000 0.00 0.00 0.00 2.29
3355 6990 3.323691 CAGTCCCATCCCATACGATACAA 59.676 47.826 0.00 0.00 0.00 2.41
3356 6991 3.578716 AGTCCCATCCCATACGATACAAG 59.421 47.826 0.00 0.00 0.00 3.16
3357 6992 3.576982 GTCCCATCCCATACGATACAAGA 59.423 47.826 0.00 0.00 0.00 3.02
3358 6993 4.223032 GTCCCATCCCATACGATACAAGAT 59.777 45.833 0.00 0.00 0.00 2.40
3359 6994 5.421056 GTCCCATCCCATACGATACAAGATA 59.579 44.000 0.00 0.00 0.00 1.98
3360 6995 6.020389 TCCCATCCCATACGATACAAGATAA 58.980 40.000 0.00 0.00 0.00 1.75
3361 6996 6.070995 TCCCATCCCATACGATACAAGATAAC 60.071 42.308 0.00 0.00 0.00 1.89
3362 6997 6.106673 CCATCCCATACGATACAAGATAACC 58.893 44.000 0.00 0.00 0.00 2.85
3363 6998 6.070767 CCATCCCATACGATACAAGATAACCT 60.071 42.308 0.00 0.00 0.00 3.50
3364 6999 6.989155 TCCCATACGATACAAGATAACCTT 57.011 37.500 0.00 0.00 34.91 3.50
3378 7013 8.635877 CAAGATAACCTTGTGTGATAGTACTC 57.364 38.462 0.00 0.00 45.52 2.59
3379 7014 7.028926 AGATAACCTTGTGTGATAGTACTCG 57.971 40.000 0.00 0.00 0.00 4.18
3380 7015 6.827251 AGATAACCTTGTGTGATAGTACTCGA 59.173 38.462 0.00 0.00 0.00 4.04
3381 7016 4.966965 ACCTTGTGTGATAGTACTCGAG 57.033 45.455 11.84 11.84 0.00 4.04
3382 7017 3.695060 ACCTTGTGTGATAGTACTCGAGG 59.305 47.826 18.41 5.18 45.16 4.63
3383 7018 3.945921 CCTTGTGTGATAGTACTCGAGGA 59.054 47.826 18.41 4.89 43.61 3.71
3384 7019 4.580995 CCTTGTGTGATAGTACTCGAGGAT 59.419 45.833 18.41 4.23 43.61 3.24
3385 7020 5.500645 TTGTGTGATAGTACTCGAGGATG 57.499 43.478 18.41 0.00 0.00 3.51
3386 7021 3.315470 TGTGTGATAGTACTCGAGGATGC 59.685 47.826 18.41 0.00 0.00 3.91
3387 7022 3.315470 GTGTGATAGTACTCGAGGATGCA 59.685 47.826 18.41 2.52 0.00 3.96
3388 7023 3.565902 TGTGATAGTACTCGAGGATGCAG 59.434 47.826 18.41 0.00 0.00 4.41
3389 7024 3.815962 GTGATAGTACTCGAGGATGCAGA 59.184 47.826 18.41 0.00 0.00 4.26
3390 7025 3.815962 TGATAGTACTCGAGGATGCAGAC 59.184 47.826 18.41 3.00 0.00 3.51
3391 7026 1.018148 AGTACTCGAGGATGCAGACG 58.982 55.000 18.41 0.00 0.00 4.18
3392 7027 0.733729 GTACTCGAGGATGCAGACGT 59.266 55.000 18.41 0.00 0.00 4.34
3393 7028 1.132643 GTACTCGAGGATGCAGACGTT 59.867 52.381 18.41 0.00 0.00 3.99
3394 7029 0.603569 ACTCGAGGATGCAGACGTTT 59.396 50.000 18.41 0.00 0.00 3.60
3395 7030 1.000955 ACTCGAGGATGCAGACGTTTT 59.999 47.619 18.41 0.00 0.00 2.43
3396 7031 1.391485 CTCGAGGATGCAGACGTTTTG 59.609 52.381 3.91 0.00 0.00 2.44
3397 7032 0.443869 CGAGGATGCAGACGTTTTGG 59.556 55.000 0.00 0.00 0.00 3.28
3398 7033 0.169009 GAGGATGCAGACGTTTTGGC 59.831 55.000 0.00 0.00 0.00 4.52
3399 7034 0.537143 AGGATGCAGACGTTTTGGCA 60.537 50.000 6.80 6.80 41.00 4.92
3400 7035 0.313672 GGATGCAGACGTTTTGGCAA 59.686 50.000 0.00 0.00 40.02 4.52
3401 7036 1.269517 GGATGCAGACGTTTTGGCAAA 60.270 47.619 8.93 8.93 40.02 3.68
3402 7037 2.468831 GATGCAGACGTTTTGGCAAAA 58.531 42.857 20.81 20.81 40.02 2.44
3403 7038 2.370281 TGCAGACGTTTTGGCAAAAA 57.630 40.000 25.60 6.92 32.54 1.94
3415 7050 6.441093 TTTTGGCAAAAACAAACATATGCA 57.559 29.167 22.24 0.00 37.53 3.96
3416 7051 6.441093 TTTGGCAAAAACAAACATATGCAA 57.559 29.167 10.83 0.00 35.57 4.08
3417 7052 6.630444 TTGGCAAAAACAAACATATGCAAT 57.370 29.167 1.58 0.00 35.57 3.56
3418 7053 5.998553 TGGCAAAAACAAACATATGCAATG 58.001 33.333 1.58 2.10 35.57 2.82
3419 7054 4.852650 GGCAAAAACAAACATATGCAATGC 59.147 37.500 1.58 0.00 35.57 3.56
3420 7055 5.450171 GCAAAAACAAACATATGCAATGCA 58.550 33.333 11.44 11.44 44.86 3.96
3421 7056 5.340138 GCAAAAACAAACATATGCAATGCAC 59.660 36.000 11.23 0.00 43.04 4.57
3422 7057 5.610235 AAAACAAACATATGCAATGCACC 57.390 34.783 11.23 0.00 43.04 5.01
3423 7058 3.957591 ACAAACATATGCAATGCACCA 57.042 38.095 11.23 1.16 43.04 4.17
3424 7059 4.268797 ACAAACATATGCAATGCACCAA 57.731 36.364 11.23 0.00 43.04 3.67
3425 7060 3.995705 ACAAACATATGCAATGCACCAAC 59.004 39.130 11.23 0.00 43.04 3.77
3426 7061 2.965572 ACATATGCAATGCACCAACC 57.034 45.000 11.23 0.00 43.04 3.77
3427 7062 2.459644 ACATATGCAATGCACCAACCT 58.540 42.857 11.23 0.00 43.04 3.50
3428 7063 3.630168 ACATATGCAATGCACCAACCTA 58.370 40.909 11.23 0.00 43.04 3.08
3429 7064 4.217510 ACATATGCAATGCACCAACCTAT 58.782 39.130 11.23 0.00 43.04 2.57
3430 7065 4.279169 ACATATGCAATGCACCAACCTATC 59.721 41.667 11.23 0.00 43.04 2.08
3431 7066 1.473258 TGCAATGCACCAACCTATCC 58.527 50.000 2.72 0.00 31.71 2.59
3432 7067 0.746659 GCAATGCACCAACCTATCCC 59.253 55.000 0.00 0.00 0.00 3.85
3433 7068 1.959508 GCAATGCACCAACCTATCCCA 60.960 52.381 0.00 0.00 0.00 4.37
3434 7069 1.750778 CAATGCACCAACCTATCCCAC 59.249 52.381 0.00 0.00 0.00 4.61
3435 7070 0.998928 ATGCACCAACCTATCCCACA 59.001 50.000 0.00 0.00 0.00 4.17
3436 7071 0.998928 TGCACCAACCTATCCCACAT 59.001 50.000 0.00 0.00 0.00 3.21
3437 7072 1.340893 TGCACCAACCTATCCCACATG 60.341 52.381 0.00 0.00 0.00 3.21
3438 7073 1.340991 GCACCAACCTATCCCACATGT 60.341 52.381 0.00 0.00 0.00 3.21
3439 7074 2.368439 CACCAACCTATCCCACATGTG 58.632 52.381 19.31 19.31 0.00 3.21
3440 7075 2.026356 CACCAACCTATCCCACATGTGA 60.026 50.000 27.46 8.67 0.00 3.58
3441 7076 2.026262 ACCAACCTATCCCACATGTGAC 60.026 50.000 27.46 0.00 0.00 3.67
3442 7077 2.239654 CCAACCTATCCCACATGTGACT 59.760 50.000 27.46 12.89 0.00 3.41
3443 7078 3.454447 CCAACCTATCCCACATGTGACTA 59.546 47.826 27.46 11.90 0.00 2.59
3444 7079 4.103153 CCAACCTATCCCACATGTGACTAT 59.897 45.833 27.46 17.67 0.00 2.12
3445 7080 5.397899 CCAACCTATCCCACATGTGACTATT 60.398 44.000 27.46 8.77 0.00 1.73
3446 7081 5.296151 ACCTATCCCACATGTGACTATTG 57.704 43.478 27.46 15.77 0.00 1.90
3447 7082 4.968719 ACCTATCCCACATGTGACTATTGA 59.031 41.667 27.46 12.75 0.00 2.57
3448 7083 5.428457 ACCTATCCCACATGTGACTATTGAA 59.572 40.000 27.46 3.51 0.00 2.69
3449 7084 6.101734 ACCTATCCCACATGTGACTATTGAAT 59.898 38.462 27.46 10.06 0.00 2.57
3450 7085 7.000472 CCTATCCCACATGTGACTATTGAATT 59.000 38.462 27.46 2.65 0.00 2.17
3451 7086 7.503566 CCTATCCCACATGTGACTATTGAATTT 59.496 37.037 27.46 2.38 0.00 1.82
3452 7087 6.513806 TCCCACATGTGACTATTGAATTTG 57.486 37.500 27.46 5.23 0.00 2.32
3453 7088 6.009589 TCCCACATGTGACTATTGAATTTGT 58.990 36.000 27.46 0.00 0.00 2.83
3454 7089 6.072008 TCCCACATGTGACTATTGAATTTGTG 60.072 38.462 27.46 4.14 33.51 3.33
3455 7090 6.072008 CCCACATGTGACTATTGAATTTGTGA 60.072 38.462 27.46 0.00 35.20 3.58
3456 7091 7.363181 CCCACATGTGACTATTGAATTTGTGAT 60.363 37.037 27.46 0.00 35.20 3.06
3457 7092 8.676401 CCACATGTGACTATTGAATTTGTGATA 58.324 33.333 27.46 0.00 35.20 2.15
3458 7093 9.494479 CACATGTGACTATTGAATTTGTGATAC 57.506 33.333 21.64 0.00 35.20 2.24
3459 7094 9.230122 ACATGTGACTATTGAATTTGTGATACA 57.770 29.630 0.00 0.00 0.00 2.29
3460 7095 9.712359 CATGTGACTATTGAATTTGTGATACAG 57.288 33.333 0.00 0.00 0.00 2.74
3461 7096 9.671279 ATGTGACTATTGAATTTGTGATACAGA 57.329 29.630 0.00 0.00 0.00 3.41
3462 7097 9.500785 TGTGACTATTGAATTTGTGATACAGAA 57.499 29.630 0.00 0.00 0.00 3.02
3466 7101 9.825972 ACTATTGAATTTGTGATACAGAAAACG 57.174 29.630 0.00 0.00 30.80 3.60
3467 7102 9.825972 CTATTGAATTTGTGATACAGAAAACGT 57.174 29.630 0.00 0.00 30.80 3.99
3469 7104 8.555166 TTGAATTTGTGATACAGAAAACGTTC 57.445 30.769 0.00 0.00 30.80 3.95
3470 7105 7.698628 TGAATTTGTGATACAGAAAACGTTCA 58.301 30.769 0.00 0.00 36.09 3.18
3471 7106 8.184848 TGAATTTGTGATACAGAAAACGTTCAA 58.815 29.630 0.00 0.00 36.09 2.69
3472 7107 8.918961 AATTTGTGATACAGAAAACGTTCAAA 57.081 26.923 0.00 4.12 36.09 2.69
3473 7108 8.918961 ATTTGTGATACAGAAAACGTTCAAAA 57.081 26.923 0.00 0.00 36.09 2.44
3474 7109 8.918961 TTTGTGATACAGAAAACGTTCAAAAT 57.081 26.923 0.00 0.00 36.09 1.82
3475 7110 7.906611 TGTGATACAGAAAACGTTCAAAATG 57.093 32.000 0.00 0.00 36.09 2.32
3476 7111 7.476667 TGTGATACAGAAAACGTTCAAAATGT 58.523 30.769 0.00 5.61 36.09 2.71
3477 7112 7.971168 TGTGATACAGAAAACGTTCAAAATGTT 59.029 29.630 0.00 0.00 42.17 2.71
3479 7114 9.015577 TGATACAGAAAACGTTCAAAATGTTTC 57.984 29.630 0.00 8.09 46.77 2.78
3480 7115 6.312645 ACAGAAAACGTTCAAAATGTTTCG 57.687 33.333 0.00 0.00 46.77 3.46
3481 7116 5.859648 ACAGAAAACGTTCAAAATGTTTCGT 59.140 32.000 0.00 0.00 46.77 3.85
3482 7117 7.022384 ACAGAAAACGTTCAAAATGTTTCGTA 58.978 30.769 0.00 0.00 46.77 3.43
3483 7118 7.698970 ACAGAAAACGTTCAAAATGTTTCGTAT 59.301 29.630 0.00 0.00 46.77 3.06
3484 7119 7.990499 CAGAAAACGTTCAAAATGTTTCGTATG 59.010 33.333 0.00 1.66 46.77 2.39
3485 7120 5.799542 AACGTTCAAAATGTTTCGTATGC 57.200 34.783 0.00 0.00 37.32 3.14
3486 7121 4.223659 ACGTTCAAAATGTTTCGTATGCC 58.776 39.130 0.00 0.00 0.00 4.40
3487 7122 4.222886 CGTTCAAAATGTTTCGTATGCCA 58.777 39.130 0.00 0.00 0.00 4.92
3488 7123 4.856487 CGTTCAAAATGTTTCGTATGCCAT 59.144 37.500 0.00 0.00 0.00 4.40
3489 7124 6.024664 CGTTCAAAATGTTTCGTATGCCATA 58.975 36.000 0.00 0.00 0.00 2.74
3490 7125 6.524933 CGTTCAAAATGTTTCGTATGCCATAA 59.475 34.615 0.00 0.00 0.00 1.90
3491 7126 7.219917 CGTTCAAAATGTTTCGTATGCCATAAT 59.780 33.333 0.00 0.00 0.00 1.28
3492 7127 8.531530 GTTCAAAATGTTTCGTATGCCATAATC 58.468 33.333 0.00 0.00 0.00 1.75
3493 7128 7.766283 TCAAAATGTTTCGTATGCCATAATCA 58.234 30.769 0.00 0.00 0.00 2.57
3494 7129 8.412456 TCAAAATGTTTCGTATGCCATAATCAT 58.588 29.630 0.00 0.00 0.00 2.45
3495 7130 8.481641 CAAAATGTTTCGTATGCCATAATCATG 58.518 33.333 0.00 0.00 0.00 3.07
3496 7131 6.882610 ATGTTTCGTATGCCATAATCATGT 57.117 33.333 0.00 0.00 0.00 3.21
3497 7132 6.058827 TGTTTCGTATGCCATAATCATGTG 57.941 37.500 0.00 0.00 0.00 3.21
3498 7133 5.008514 TGTTTCGTATGCCATAATCATGTGG 59.991 40.000 0.00 0.00 40.60 4.17
3499 7134 3.673902 TCGTATGCCATAATCATGTGGG 58.326 45.455 2.55 0.00 38.22 4.61
3500 7135 3.326297 TCGTATGCCATAATCATGTGGGA 59.674 43.478 2.55 0.00 42.18 4.37
3502 7137 4.095334 CGTATGCCATAATCATGTGGGATG 59.905 45.833 14.86 5.38 46.07 3.51
3503 7138 3.880168 TGCCATAATCATGTGGGATGA 57.120 42.857 2.55 0.00 38.22 2.92
3504 7139 4.391683 TGCCATAATCATGTGGGATGAT 57.608 40.909 2.55 0.00 38.22 2.45
3505 7140 5.517620 TGCCATAATCATGTGGGATGATA 57.482 39.130 2.55 0.00 38.22 2.15
3506 7141 5.503002 TGCCATAATCATGTGGGATGATAG 58.497 41.667 2.55 0.00 38.22 2.08
3507 7142 5.251237 TGCCATAATCATGTGGGATGATAGA 59.749 40.000 2.55 0.00 38.22 1.98
3508 7143 5.587844 GCCATAATCATGTGGGATGATAGAC 59.412 44.000 2.55 0.00 38.22 2.59
3509 7144 6.118170 CCATAATCATGTGGGATGATAGACC 58.882 44.000 0.00 0.00 37.75 3.85
3510 7145 3.969287 ATCATGTGGGATGATAGACCG 57.031 47.619 0.00 0.00 37.03 4.79
3511 7146 1.344438 TCATGTGGGATGATAGACCGC 59.656 52.381 0.00 0.00 35.40 5.68
3512 7147 2.909140 TGTGGGATGATAGACCGCA 58.091 52.632 0.00 0.00 42.04 5.69
3513 7148 0.464036 TGTGGGATGATAGACCGCAC 59.536 55.000 0.00 0.00 39.65 5.34
3514 7149 0.464036 GTGGGATGATAGACCGCACA 59.536 55.000 0.00 0.00 34.96 4.57
3515 7150 0.464036 TGGGATGATAGACCGCACAC 59.536 55.000 0.00 0.00 0.00 3.82
3516 7151 0.597637 GGGATGATAGACCGCACACG 60.598 60.000 0.00 0.00 39.67 4.49
3517 7152 1.215655 GGATGATAGACCGCACACGC 61.216 60.000 0.00 0.00 38.22 5.34
3518 7153 0.249073 GATGATAGACCGCACACGCT 60.249 55.000 0.00 0.00 38.22 5.07
3519 7154 1.001706 GATGATAGACCGCACACGCTA 60.002 52.381 0.00 0.00 38.22 4.26
3520 7155 1.029681 TGATAGACCGCACACGCTAT 58.970 50.000 0.00 0.00 38.22 2.97
3521 7156 1.407618 TGATAGACCGCACACGCTATT 59.592 47.619 0.00 0.00 38.22 1.73
3522 7157 2.159156 TGATAGACCGCACACGCTATTT 60.159 45.455 0.00 0.00 38.22 1.40
3523 7158 1.635844 TAGACCGCACACGCTATTTG 58.364 50.000 0.00 0.00 38.22 2.32
3524 7159 0.037697 AGACCGCACACGCTATTTGA 60.038 50.000 0.00 0.00 38.22 2.69
3525 7160 0.094730 GACCGCACACGCTATTTGAC 59.905 55.000 0.00 0.00 38.22 3.18
3526 7161 0.601576 ACCGCACACGCTATTTGACA 60.602 50.000 0.00 0.00 38.22 3.58
3527 7162 0.515127 CCGCACACGCTATTTGACAA 59.485 50.000 0.00 0.00 38.22 3.18
3528 7163 1.069568 CCGCACACGCTATTTGACAAA 60.070 47.619 2.48 2.48 38.22 2.83
3529 7164 2.603412 CCGCACACGCTATTTGACAAAA 60.603 45.455 4.41 0.00 38.22 2.44
3530 7165 3.039405 CGCACACGCTATTTGACAAAAA 58.961 40.909 4.41 0.00 35.30 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.338964 TGTTCGAACCCTCGCATAGTATTA 59.661 41.667 24.78 0.00 45.04 0.98
24 26 2.355363 CGTGTTCGAACCCTCGCA 60.355 61.111 24.78 2.66 45.04 5.10
31 33 2.654912 CCCGCTCACGTGTTCGAAC 61.655 63.158 21.42 21.42 40.62 3.95
47 49 3.756727 GCTCTTTGCAGCAGGCCC 61.757 66.667 0.00 0.00 43.89 5.80
48 50 4.112341 CGCTCTTTGCAGCAGGCC 62.112 66.667 0.00 0.00 43.89 5.19
49 51 3.036783 CTCGCTCTTTGCAGCAGGC 62.037 63.158 0.00 0.00 43.06 4.85
166 170 4.387598 TCGCTACAGTACCTCCTATTCTC 58.612 47.826 0.00 0.00 0.00 2.87
174 178 2.873133 AATGCTCGCTACAGTACCTC 57.127 50.000 0.00 0.00 0.00 3.85
269 278 5.741982 CGCTACAATACCTGCCAATTTTAAC 59.258 40.000 0.00 0.00 0.00 2.01
286 295 7.755822 TGCTTTTTAAAAGAAAGTTCGCTACAA 59.244 29.630 20.14 0.00 36.67 2.41
323 332 6.088616 GCATTTTCAGAAAGACCAAAGATTCG 59.911 38.462 0.00 0.00 0.00 3.34
360 369 7.508977 TGTTCCAAATTTAGTTCCCATTTCTCT 59.491 33.333 0.00 0.00 0.00 3.10
363 372 8.147704 TCTTGTTCCAAATTTAGTTCCCATTTC 58.852 33.333 0.00 0.00 0.00 2.17
422 450 3.750639 TCCATAATTTGGTTCGCGTTC 57.249 42.857 5.77 0.00 46.52 3.95
432 460 9.492973 AAAAAGTGTTCAGGATTCCATAATTTG 57.507 29.630 5.29 0.00 0.00 2.32
540 571 1.352017 TGCAGTCTGAACCATCCATGT 59.648 47.619 3.32 0.00 0.00 3.21
578 613 7.227314 TGTTGATTATTAGGAGCACTGCTATTG 59.773 37.037 2.71 0.00 39.88 1.90
579 614 7.282585 TGTTGATTATTAGGAGCACTGCTATT 58.717 34.615 2.71 0.00 39.88 1.73
617 680 4.906618 AGCGGGTTTCTCTCTTTTCATTA 58.093 39.130 0.00 0.00 0.00 1.90
655 718 2.989840 CTCGATCGGCTTGATGGAATAC 59.010 50.000 16.41 0.00 40.71 1.89
693 760 2.162754 CCCGGTCGTATGCGTGTTC 61.163 63.158 0.00 0.00 39.49 3.18
735 802 1.355210 GCGCACGTCATTATTGGGG 59.645 57.895 0.30 0.00 0.00 4.96
737 804 1.355210 GGGCGCACGTCATTATTGG 59.645 57.895 10.83 0.00 0.00 3.16
774 1179 3.126225 GAGTCGCCTCGTCTCCGT 61.126 66.667 2.88 0.00 36.41 4.69
941 1533 0.758123 GGGAGGGCTCTTGAGATGAG 59.242 60.000 1.30 0.00 34.87 2.90
945 1537 1.613630 GGTGGGAGGGCTCTTGAGA 60.614 63.158 1.30 0.00 0.00 3.27
998 1594 3.671702 CGCCTTCTTTTTCCTCTTCATGC 60.672 47.826 0.00 0.00 0.00 4.06
1220 1840 1.076024 TGGAGCAGAGGAAAAAGGCAT 59.924 47.619 0.00 0.00 0.00 4.40
1229 1849 2.172483 GAAGGCGTTGGAGCAGAGGA 62.172 60.000 0.00 0.00 39.27 3.71
1318 1938 0.036388 TCTTTGTGGAGGCGGATGTC 60.036 55.000 0.00 0.00 0.00 3.06
2258 2981 5.292765 ACGTGCATCTTTCATACCTATCTG 58.707 41.667 0.00 0.00 0.00 2.90
2291 3029 3.118112 AGGCATTTGACAGGATCTAGTGG 60.118 47.826 0.00 0.00 0.00 4.00
2292 3030 4.148128 AGGCATTTGACAGGATCTAGTG 57.852 45.455 0.00 0.00 0.00 2.74
2293 3031 4.225942 TCAAGGCATTTGACAGGATCTAGT 59.774 41.667 0.00 0.00 40.82 2.57
2294 3032 4.774124 TCAAGGCATTTGACAGGATCTAG 58.226 43.478 0.00 0.00 40.82 2.43
2295 3033 4.471025 TCTCAAGGCATTTGACAGGATCTA 59.529 41.667 0.00 0.00 40.82 1.98
2296 3034 3.265221 TCTCAAGGCATTTGACAGGATCT 59.735 43.478 0.00 0.00 40.82 2.75
2297 3035 3.376546 GTCTCAAGGCATTTGACAGGATC 59.623 47.826 8.54 0.00 40.82 3.36
2298 3036 3.350833 GTCTCAAGGCATTTGACAGGAT 58.649 45.455 8.54 0.00 40.82 3.24
2299 3037 2.553028 GGTCTCAAGGCATTTGACAGGA 60.553 50.000 13.57 2.76 40.82 3.86
2300 3038 1.815003 GGTCTCAAGGCATTTGACAGG 59.185 52.381 13.57 0.83 40.82 4.00
2301 3039 1.815003 GGGTCTCAAGGCATTTGACAG 59.185 52.381 13.57 1.39 40.82 3.51
2302 3040 1.144708 TGGGTCTCAAGGCATTTGACA 59.855 47.619 13.57 2.99 40.82 3.58
2303 3041 1.909700 TGGGTCTCAAGGCATTTGAC 58.090 50.000 5.70 5.70 40.82 3.18
2304 3042 2.309755 AGATGGGTCTCAAGGCATTTGA 59.690 45.455 3.30 3.30 43.40 2.69
2305 3043 2.731572 AGATGGGTCTCAAGGCATTTG 58.268 47.619 0.00 0.00 38.17 2.32
2541 3303 5.073144 GGGGATCCAAACACTCCTCATTATA 59.927 44.000 15.23 0.00 29.39 0.98
2582 3344 8.698973 TTTACAAATAACACTTGAAGGGATCA 57.301 30.769 0.00 0.00 35.85 2.92
2660 3433 1.811965 CTTGTCCGCAACATCAATGGA 59.188 47.619 0.00 0.00 37.82 3.41
2674 3447 5.130477 TCCTCAGGTATAATCAACCTTGTCC 59.870 44.000 0.00 0.00 45.26 4.02
2729 3505 3.569701 GGCCAAAGACAACTCAATCTTCA 59.430 43.478 0.00 0.00 34.01 3.02
2738 3514 0.779997 AGGATGGGCCAAAGACAACT 59.220 50.000 11.89 0.00 40.02 3.16
2761 3541 1.303561 TGGAGCAGCCACATCCAAC 60.304 57.895 0.00 0.00 43.33 3.77
2880 3841 6.349944 CCACCCATTCTTTCTCAGAGAAAATG 60.350 42.308 23.16 22.14 42.95 2.32
2940 3901 3.498082 AGCAACTTTTCAACACGAACAC 58.502 40.909 0.00 0.00 31.73 3.32
2945 3906 3.758300 ACAGAAGCAACTTTTCAACACG 58.242 40.909 0.00 0.00 0.00 4.49
2979 3940 5.660460 AGGTTGGAATCAAGTTTTGAACAC 58.340 37.500 0.00 0.00 43.95 3.32
2981 3942 7.003939 CAAAGGTTGGAATCAAGTTTTGAAC 57.996 36.000 0.00 0.00 43.95 3.18
3024 3993 1.140252 GTTACATACCAGGCGGGACAT 59.860 52.381 11.67 0.00 41.15 3.06
3025 3994 0.538118 GTTACATACCAGGCGGGACA 59.462 55.000 11.67 0.00 41.15 4.02
3026 3995 0.828677 AGTTACATACCAGGCGGGAC 59.171 55.000 11.67 0.00 41.15 4.46
3027 3996 2.313317 CTAGTTACATACCAGGCGGGA 58.687 52.381 11.67 0.00 41.15 5.14
3028 3997 1.270147 GCTAGTTACATACCAGGCGGG 60.270 57.143 0.79 0.79 44.81 6.13
3030 3999 2.159156 TGTGCTAGTTACATACCAGGCG 60.159 50.000 0.00 0.00 0.00 5.52
3031 4000 3.118738 ACTGTGCTAGTTACATACCAGGC 60.119 47.826 3.03 0.00 35.67 4.85
3034 4003 3.369052 GCCACTGTGCTAGTTACATACCA 60.369 47.826 1.29 0.00 37.60 3.25
3035 4004 3.118738 AGCCACTGTGCTAGTTACATACC 60.119 47.826 1.29 0.00 40.56 2.73
3051 4033 4.954933 ACAAACGTGTGAGCCACT 57.045 50.000 13.99 0.00 42.20 4.00
3061 4043 2.357327 TATACTGCTCGCACAAACGT 57.643 45.000 0.00 0.00 0.00 3.99
3062 4044 3.925688 AATATACTGCTCGCACAAACG 57.074 42.857 0.00 0.00 0.00 3.60
3063 4045 4.969816 ACAAATATACTGCTCGCACAAAC 58.030 39.130 0.00 0.00 0.00 2.93
3068 6198 6.292649 CCGAATAAACAAATATACTGCTCGCA 60.293 38.462 0.00 0.00 0.00 5.10
3163 6796 4.947388 GCTCACCCCATAAAGAACAATACA 59.053 41.667 0.00 0.00 0.00 2.29
3181 6814 2.185004 TCTAAAGCACAAGGGCTCAC 57.815 50.000 0.00 0.00 45.07 3.51
3185 6818 4.277423 TGTACTTTTCTAAAGCACAAGGGC 59.723 41.667 3.40 0.00 0.00 5.19
3199 6832 9.855021 AGTGCCATTACATATTTTGTACTTTTC 57.145 29.630 0.00 0.00 40.53 2.29
3203 6836 8.574251 TGAAGTGCCATTACATATTTTGTACT 57.426 30.769 0.00 0.00 40.53 2.73
3266 6901 3.958798 ACTAGTGGCCATATCTAACGTGT 59.041 43.478 9.72 0.00 0.00 4.49
3269 6904 3.243737 TGCACTAGTGGCCATATCTAACG 60.244 47.826 23.95 0.89 0.00 3.18
3270 6905 4.202264 ACTGCACTAGTGGCCATATCTAAC 60.202 45.833 23.95 3.61 38.49 2.34
3297 6932 8.570068 AGGTGTTTAAACCGTTTGTATATGAT 57.430 30.769 15.59 0.00 45.53 2.45
3305 6940 3.241091 GCGAAAGGTGTTTAAACCGTTTG 59.759 43.478 21.45 15.21 45.53 2.93
3319 6954 0.249911 GGACTGTGTCAGCGAAAGGT 60.250 55.000 0.00 0.00 46.81 3.50
3324 6959 1.591703 GATGGGACTGTGTCAGCGA 59.408 57.895 0.00 0.00 34.37 4.93
3325 6960 1.448540 GGATGGGACTGTGTCAGCG 60.449 63.158 0.07 0.00 34.37 5.18
3326 6961 1.078143 GGGATGGGACTGTGTCAGC 60.078 63.158 0.07 0.00 34.37 4.26
3327 6962 0.914644 ATGGGATGGGACTGTGTCAG 59.085 55.000 0.07 0.00 37.52 3.51
3328 6963 1.837439 GTATGGGATGGGACTGTGTCA 59.163 52.381 0.07 0.00 33.68 3.58
3329 6964 1.202533 CGTATGGGATGGGACTGTGTC 60.203 57.143 0.00 0.00 0.00 3.67
3330 6965 0.830648 CGTATGGGATGGGACTGTGT 59.169 55.000 0.00 0.00 0.00 3.72
3331 6966 1.119684 TCGTATGGGATGGGACTGTG 58.880 55.000 0.00 0.00 0.00 3.66
3332 6967 2.103153 ATCGTATGGGATGGGACTGT 57.897 50.000 0.00 0.00 0.00 3.55
3333 6968 2.897326 TGTATCGTATGGGATGGGACTG 59.103 50.000 0.00 0.00 0.00 3.51
3334 6969 3.254093 TGTATCGTATGGGATGGGACT 57.746 47.619 0.00 0.00 0.00 3.85
3335 6970 3.576982 TCTTGTATCGTATGGGATGGGAC 59.423 47.826 0.00 0.00 0.00 4.46
3336 6971 3.851979 TCTTGTATCGTATGGGATGGGA 58.148 45.455 0.00 0.00 0.00 4.37
3337 6972 4.826274 ATCTTGTATCGTATGGGATGGG 57.174 45.455 0.00 0.00 0.00 4.00
3338 6973 6.070767 AGGTTATCTTGTATCGTATGGGATGG 60.071 42.308 0.00 0.00 0.00 3.51
3339 6974 6.936279 AGGTTATCTTGTATCGTATGGGATG 58.064 40.000 0.00 0.00 0.00 3.51
3340 6975 7.386851 CAAGGTTATCTTGTATCGTATGGGAT 58.613 38.462 0.00 0.00 45.81 3.85
3341 6976 6.755206 CAAGGTTATCTTGTATCGTATGGGA 58.245 40.000 0.00 0.00 45.81 4.37
3354 6989 7.338703 TCGAGTACTATCACACAAGGTTATCTT 59.661 37.037 0.00 0.00 35.79 2.40
3355 6990 6.827251 TCGAGTACTATCACACAAGGTTATCT 59.173 38.462 0.00 0.00 0.00 1.98
3356 6991 7.024340 TCGAGTACTATCACACAAGGTTATC 57.976 40.000 0.00 0.00 0.00 1.75
3357 6992 6.039493 CCTCGAGTACTATCACACAAGGTTAT 59.961 42.308 12.31 0.00 0.00 1.89
3358 6993 5.356190 CCTCGAGTACTATCACACAAGGTTA 59.644 44.000 12.31 0.00 0.00 2.85
3359 6994 4.158025 CCTCGAGTACTATCACACAAGGTT 59.842 45.833 12.31 0.00 0.00 3.50
3360 6995 3.695060 CCTCGAGTACTATCACACAAGGT 59.305 47.826 12.31 0.00 0.00 3.50
3361 6996 3.945921 TCCTCGAGTACTATCACACAAGG 59.054 47.826 12.31 0.00 0.00 3.61
3362 6997 5.515184 CATCCTCGAGTACTATCACACAAG 58.485 45.833 12.31 0.00 0.00 3.16
3363 6998 4.202020 GCATCCTCGAGTACTATCACACAA 60.202 45.833 12.31 0.00 0.00 3.33
3364 6999 3.315470 GCATCCTCGAGTACTATCACACA 59.685 47.826 12.31 0.00 0.00 3.72
3365 7000 3.315470 TGCATCCTCGAGTACTATCACAC 59.685 47.826 12.31 0.00 0.00 3.82
3366 7001 3.551846 TGCATCCTCGAGTACTATCACA 58.448 45.455 12.31 0.00 0.00 3.58
3367 7002 3.815962 TCTGCATCCTCGAGTACTATCAC 59.184 47.826 12.31 0.00 0.00 3.06
3368 7003 3.815962 GTCTGCATCCTCGAGTACTATCA 59.184 47.826 12.31 0.85 0.00 2.15
3369 7004 3.120477 CGTCTGCATCCTCGAGTACTATC 60.120 52.174 12.31 0.00 0.00 2.08
3370 7005 2.809119 CGTCTGCATCCTCGAGTACTAT 59.191 50.000 12.31 0.00 0.00 2.12
3371 7006 2.210961 CGTCTGCATCCTCGAGTACTA 58.789 52.381 12.31 0.00 0.00 1.82
3372 7007 1.018148 CGTCTGCATCCTCGAGTACT 58.982 55.000 12.31 0.00 0.00 2.73
3373 7008 0.733729 ACGTCTGCATCCTCGAGTAC 59.266 55.000 12.31 0.00 0.00 2.73
3374 7009 1.460504 AACGTCTGCATCCTCGAGTA 58.539 50.000 12.31 0.00 0.00 2.59
3375 7010 0.603569 AAACGTCTGCATCCTCGAGT 59.396 50.000 12.31 0.00 0.00 4.18
3376 7011 1.391485 CAAAACGTCTGCATCCTCGAG 59.609 52.381 5.13 5.13 0.00 4.04
3377 7012 1.428448 CAAAACGTCTGCATCCTCGA 58.572 50.000 0.00 0.00 0.00 4.04
3378 7013 0.443869 CCAAAACGTCTGCATCCTCG 59.556 55.000 0.00 0.00 0.00 4.63
3379 7014 0.169009 GCCAAAACGTCTGCATCCTC 59.831 55.000 0.00 0.00 0.00 3.71
3380 7015 0.537143 TGCCAAAACGTCTGCATCCT 60.537 50.000 0.00 0.00 0.00 3.24
3381 7016 0.313672 TTGCCAAAACGTCTGCATCC 59.686 50.000 0.00 0.00 33.08 3.51
3382 7017 2.132740 TTTGCCAAAACGTCTGCATC 57.867 45.000 0.00 0.00 33.08 3.91
3383 7018 2.593346 TTTTGCCAAAACGTCTGCAT 57.407 40.000 0.00 0.00 33.08 3.96
3384 7019 1.996191 GTTTTTGCCAAAACGTCTGCA 59.004 42.857 10.05 0.00 41.80 4.41
3385 7020 2.712132 GTTTTTGCCAAAACGTCTGC 57.288 45.000 10.05 0.00 41.80 4.26
3392 7027 6.441093 TGCATATGTTTGTTTTTGCCAAAA 57.559 29.167 4.29 0.00 33.89 2.44
3393 7028 6.441093 TTGCATATGTTTGTTTTTGCCAAA 57.559 29.167 4.29 0.00 0.00 3.28
3394 7029 6.436261 CATTGCATATGTTTGTTTTTGCCAA 58.564 32.000 4.29 0.00 0.00 4.52
3395 7030 5.562307 GCATTGCATATGTTTGTTTTTGCCA 60.562 36.000 3.15 0.00 0.00 4.92
3396 7031 4.852650 GCATTGCATATGTTTGTTTTTGCC 59.147 37.500 3.15 0.00 0.00 4.52
3397 7032 5.340138 GTGCATTGCATATGTTTGTTTTTGC 59.660 36.000 15.49 4.10 41.91 3.68
3398 7033 5.852229 GGTGCATTGCATATGTTTGTTTTTG 59.148 36.000 15.49 0.00 41.91 2.44
3399 7034 5.530171 TGGTGCATTGCATATGTTTGTTTTT 59.470 32.000 15.49 0.00 41.91 1.94
3400 7035 5.061853 TGGTGCATTGCATATGTTTGTTTT 58.938 33.333 15.49 0.00 41.91 2.43
3401 7036 4.639334 TGGTGCATTGCATATGTTTGTTT 58.361 34.783 15.49 0.00 41.91 2.83
3402 7037 4.268797 TGGTGCATTGCATATGTTTGTT 57.731 36.364 15.49 0.00 41.91 2.83
3403 7038 3.957591 TGGTGCATTGCATATGTTTGT 57.042 38.095 15.49 0.00 41.91 2.83
3404 7039 3.371591 GGTTGGTGCATTGCATATGTTTG 59.628 43.478 15.49 1.35 41.91 2.93
3405 7040 3.261390 AGGTTGGTGCATTGCATATGTTT 59.739 39.130 15.49 0.00 41.91 2.83
3406 7041 2.833338 AGGTTGGTGCATTGCATATGTT 59.167 40.909 15.49 0.00 41.91 2.71
3407 7042 2.459644 AGGTTGGTGCATTGCATATGT 58.540 42.857 15.49 0.00 41.91 2.29
3408 7043 4.321452 GGATAGGTTGGTGCATTGCATATG 60.321 45.833 15.49 0.00 41.91 1.78
3409 7044 3.828451 GGATAGGTTGGTGCATTGCATAT 59.172 43.478 15.49 7.23 41.91 1.78
3410 7045 3.221771 GGATAGGTTGGTGCATTGCATA 58.778 45.455 15.49 4.53 41.91 3.14
3411 7046 2.034124 GGATAGGTTGGTGCATTGCAT 58.966 47.619 15.49 0.00 41.91 3.96
3412 7047 1.473258 GGATAGGTTGGTGCATTGCA 58.527 50.000 7.38 7.38 35.60 4.08
3413 7048 0.746659 GGGATAGGTTGGTGCATTGC 59.253 55.000 0.46 0.46 0.00 3.56
3414 7049 1.750778 GTGGGATAGGTTGGTGCATTG 59.249 52.381 0.00 0.00 0.00 2.82
3415 7050 1.357420 TGTGGGATAGGTTGGTGCATT 59.643 47.619 0.00 0.00 0.00 3.56
3416 7051 0.998928 TGTGGGATAGGTTGGTGCAT 59.001 50.000 0.00 0.00 0.00 3.96
3417 7052 0.998928 ATGTGGGATAGGTTGGTGCA 59.001 50.000 0.00 0.00 0.00 4.57
3418 7053 1.340991 ACATGTGGGATAGGTTGGTGC 60.341 52.381 0.00 0.00 0.00 5.01
3419 7054 2.026356 TCACATGTGGGATAGGTTGGTG 60.026 50.000 25.16 0.00 0.00 4.17
3420 7055 2.026262 GTCACATGTGGGATAGGTTGGT 60.026 50.000 25.16 0.00 0.00 3.67
3421 7056 2.239654 AGTCACATGTGGGATAGGTTGG 59.760 50.000 25.16 0.00 0.00 3.77
3422 7057 3.634397 AGTCACATGTGGGATAGGTTG 57.366 47.619 25.16 0.00 0.00 3.77
3423 7058 5.428457 TCAATAGTCACATGTGGGATAGGTT 59.572 40.000 25.16 8.95 0.00 3.50
3424 7059 4.968719 TCAATAGTCACATGTGGGATAGGT 59.031 41.667 25.16 5.54 0.00 3.08
3425 7060 5.551305 TCAATAGTCACATGTGGGATAGG 57.449 43.478 25.16 11.64 0.00 2.57
3426 7061 8.347771 CAAATTCAATAGTCACATGTGGGATAG 58.652 37.037 25.16 11.48 0.00 2.08
3427 7062 7.833682 ACAAATTCAATAGTCACATGTGGGATA 59.166 33.333 25.16 15.27 0.00 2.59
3428 7063 6.664816 ACAAATTCAATAGTCACATGTGGGAT 59.335 34.615 25.16 13.08 0.00 3.85
3429 7064 6.009589 ACAAATTCAATAGTCACATGTGGGA 58.990 36.000 25.16 11.36 0.00 4.37
3430 7065 6.072008 TCACAAATTCAATAGTCACATGTGGG 60.072 38.462 25.16 8.70 37.01 4.61
3431 7066 6.912082 TCACAAATTCAATAGTCACATGTGG 58.088 36.000 25.16 8.50 37.01 4.17
3432 7067 9.494479 GTATCACAAATTCAATAGTCACATGTG 57.506 33.333 20.18 20.18 37.55 3.21
3433 7068 9.230122 TGTATCACAAATTCAATAGTCACATGT 57.770 29.630 0.00 0.00 0.00 3.21
3434 7069 9.712359 CTGTATCACAAATTCAATAGTCACATG 57.288 33.333 0.00 0.00 0.00 3.21
3435 7070 9.671279 TCTGTATCACAAATTCAATAGTCACAT 57.329 29.630 0.00 0.00 0.00 3.21
3436 7071 9.500785 TTCTGTATCACAAATTCAATAGTCACA 57.499 29.630 0.00 0.00 0.00 3.58
3440 7075 9.825972 CGTTTTCTGTATCACAAATTCAATAGT 57.174 29.630 0.00 0.00 0.00 2.12
3441 7076 9.825972 ACGTTTTCTGTATCACAAATTCAATAG 57.174 29.630 0.00 0.00 0.00 1.73
3443 7078 9.180678 GAACGTTTTCTGTATCACAAATTCAAT 57.819 29.630 0.46 0.00 0.00 2.57
3444 7079 8.184848 TGAACGTTTTCTGTATCACAAATTCAA 58.815 29.630 0.46 0.00 32.36 2.69
3445 7080 7.698628 TGAACGTTTTCTGTATCACAAATTCA 58.301 30.769 0.46 0.00 32.36 2.57
3446 7081 8.555166 TTGAACGTTTTCTGTATCACAAATTC 57.445 30.769 0.46 0.00 32.36 2.17
3447 7082 8.918961 TTTGAACGTTTTCTGTATCACAAATT 57.081 26.923 0.46 0.00 32.36 1.82
3448 7083 8.918961 TTTTGAACGTTTTCTGTATCACAAAT 57.081 26.923 0.46 0.00 32.36 2.32
3449 7084 8.802856 CATTTTGAACGTTTTCTGTATCACAAA 58.197 29.630 0.46 1.27 32.36 2.83
3450 7085 7.971168 ACATTTTGAACGTTTTCTGTATCACAA 59.029 29.630 0.46 0.00 32.36 3.33
3451 7086 7.476667 ACATTTTGAACGTTTTCTGTATCACA 58.523 30.769 0.46 0.00 32.36 3.58
3452 7087 7.908193 ACATTTTGAACGTTTTCTGTATCAC 57.092 32.000 0.46 0.00 32.36 3.06
3453 7088 8.918961 AAACATTTTGAACGTTTTCTGTATCA 57.081 26.923 0.46 0.00 32.36 2.15
3454 7089 8.198816 CGAAACATTTTGAACGTTTTCTGTATC 58.801 33.333 0.46 0.00 33.18 2.24
3455 7090 7.698970 ACGAAACATTTTGAACGTTTTCTGTAT 59.301 29.630 0.46 0.00 33.18 2.29
3456 7091 7.022384 ACGAAACATTTTGAACGTTTTCTGTA 58.978 30.769 0.46 0.00 33.18 2.74
3457 7092 5.859648 ACGAAACATTTTGAACGTTTTCTGT 59.140 32.000 0.46 0.00 33.18 3.41
3458 7093 6.312645 ACGAAACATTTTGAACGTTTTCTG 57.687 33.333 0.46 0.00 33.18 3.02
3459 7094 7.305763 GCATACGAAACATTTTGAACGTTTTCT 60.306 33.333 0.46 0.00 33.18 2.52
3460 7095 6.779105 GCATACGAAACATTTTGAACGTTTTC 59.221 34.615 0.46 0.00 33.18 2.29
3461 7096 6.291902 GGCATACGAAACATTTTGAACGTTTT 60.292 34.615 0.46 0.00 33.18 2.43
3462 7097 5.174216 GGCATACGAAACATTTTGAACGTTT 59.826 36.000 0.46 0.00 35.63 3.60
3463 7098 4.677832 GGCATACGAAACATTTTGAACGTT 59.322 37.500 0.00 0.00 35.66 3.99
3464 7099 4.223659 GGCATACGAAACATTTTGAACGT 58.776 39.130 0.00 0.00 37.68 3.99
3465 7100 4.222886 TGGCATACGAAACATTTTGAACG 58.777 39.130 0.00 0.00 0.00 3.95
3466 7101 7.804614 TTATGGCATACGAAACATTTTGAAC 57.195 32.000 6.72 0.00 0.00 3.18
3467 7102 8.246871 TGATTATGGCATACGAAACATTTTGAA 58.753 29.630 6.72 0.00 0.00 2.69
3468 7103 7.766283 TGATTATGGCATACGAAACATTTTGA 58.234 30.769 6.72 0.00 0.00 2.69
3469 7104 7.984002 TGATTATGGCATACGAAACATTTTG 57.016 32.000 6.72 0.00 0.00 2.44
3470 7105 8.196771 ACATGATTATGGCATACGAAACATTTT 58.803 29.630 6.72 0.00 38.66 1.82
3471 7106 7.648908 CACATGATTATGGCATACGAAACATTT 59.351 33.333 6.72 0.00 38.66 2.32
3472 7107 7.140705 CACATGATTATGGCATACGAAACATT 58.859 34.615 6.72 0.00 38.66 2.71
3473 7108 6.294120 CCACATGATTATGGCATACGAAACAT 60.294 38.462 6.72 2.71 38.66 2.71
3474 7109 5.008514 CCACATGATTATGGCATACGAAACA 59.991 40.000 6.72 0.19 38.66 2.83
3475 7110 5.451908 CCACATGATTATGGCATACGAAAC 58.548 41.667 6.72 0.00 38.66 2.78
3476 7111 4.518590 CCCACATGATTATGGCATACGAAA 59.481 41.667 6.72 0.00 38.66 3.46
3477 7112 4.071423 CCCACATGATTATGGCATACGAA 58.929 43.478 6.72 0.00 38.66 3.85
3478 7113 3.326297 TCCCACATGATTATGGCATACGA 59.674 43.478 6.72 0.00 38.66 3.43
3479 7114 3.673902 TCCCACATGATTATGGCATACG 58.326 45.455 6.72 0.00 38.66 3.06
3480 7115 5.255687 TCATCCCACATGATTATGGCATAC 58.744 41.667 6.72 0.00 38.66 2.39
3481 7116 5.517620 TCATCCCACATGATTATGGCATA 57.482 39.130 2.32 2.32 38.66 3.14
3482 7117 4.391683 TCATCCCACATGATTATGGCAT 57.608 40.909 4.88 4.88 38.66 4.40
3483 7118 3.880168 TCATCCCACATGATTATGGCA 57.120 42.857 0.00 0.00 38.66 4.92
3484 7119 5.587844 GTCTATCATCCCACATGATTATGGC 59.412 44.000 0.00 0.00 39.30 4.40
3485 7120 6.118170 GGTCTATCATCCCACATGATTATGG 58.882 44.000 0.00 0.00 39.30 2.74
3486 7121 5.814188 CGGTCTATCATCCCACATGATTATG 59.186 44.000 0.00 0.00 39.30 1.90
3487 7122 5.627735 GCGGTCTATCATCCCACATGATTAT 60.628 44.000 0.00 0.00 39.30 1.28
3488 7123 4.322725 GCGGTCTATCATCCCACATGATTA 60.323 45.833 0.00 0.00 39.30 1.75
3489 7124 3.557898 GCGGTCTATCATCCCACATGATT 60.558 47.826 0.00 0.00 39.30 2.57
3490 7125 2.027745 GCGGTCTATCATCCCACATGAT 60.028 50.000 0.00 2.77 41.25 2.45
3491 7126 1.344438 GCGGTCTATCATCCCACATGA 59.656 52.381 0.00 0.00 0.00 3.07
3492 7127 1.070601 TGCGGTCTATCATCCCACATG 59.929 52.381 0.00 0.00 0.00 3.21
3493 7128 1.070758 GTGCGGTCTATCATCCCACAT 59.929 52.381 0.00 0.00 0.00 3.21
3494 7129 0.464036 GTGCGGTCTATCATCCCACA 59.536 55.000 0.00 0.00 0.00 4.17
3495 7130 0.464036 TGTGCGGTCTATCATCCCAC 59.536 55.000 0.00 0.00 0.00 4.61
3496 7131 0.464036 GTGTGCGGTCTATCATCCCA 59.536 55.000 0.00 0.00 0.00 4.37
3497 7132 0.597637 CGTGTGCGGTCTATCATCCC 60.598 60.000 0.00 0.00 0.00 3.85
3498 7133 1.215655 GCGTGTGCGGTCTATCATCC 61.216 60.000 0.00 0.00 38.78 3.51
3499 7134 0.249073 AGCGTGTGCGGTCTATCATC 60.249 55.000 0.00 0.00 46.65 2.92
3500 7135 1.029681 TAGCGTGTGCGGTCTATCAT 58.970 50.000 0.00 0.00 46.65 2.45
3501 7136 1.029681 ATAGCGTGTGCGGTCTATCA 58.970 50.000 0.00 0.00 46.65 2.15
3502 7137 2.135664 AATAGCGTGTGCGGTCTATC 57.864 50.000 0.00 0.00 46.65 2.08
3503 7138 2.159156 TCAAATAGCGTGTGCGGTCTAT 60.159 45.455 0.00 0.00 46.65 1.98
3504 7139 1.202817 TCAAATAGCGTGTGCGGTCTA 59.797 47.619 0.00 0.00 46.65 2.59
3505 7140 0.037697 TCAAATAGCGTGTGCGGTCT 60.038 50.000 0.00 0.00 46.65 3.85
3506 7141 0.094730 GTCAAATAGCGTGTGCGGTC 59.905 55.000 0.00 0.00 46.65 4.79


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

AutoCloner maintained by Alex Coulton.