TBLASTN 2.2.13 [Nov-27-2005]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= SPP00000054_2.0 # Protein # SECIS binding protein 2 (SBP2) #
Human (Homo sapiens)
(854 letters)
Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis/g
enome.fa
14,644 sequences; 2,174,243,242 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gi|397459409|gb|JH736092.1| Alligator mississippiensis unplaced ... 122 6e-26
gi|397456025|gb|JH739475.1| Alligator mississippiensis unplaced ... 106 6e-21
gi|397458920|gb|JH736581.1| Alligator mississippiensis unplaced ... 36 7.3
gi|397462614|gb|JH732887.1| Alligator mississippiensis unplaced ... 36 9.5
>gi|397459409|gb|JH736092.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-8255, whole genome shotgun sequence
Length = 156987
Score = 122 bits (307), Expect = 6e-26
Identities = 60/74 (81%), Positives = 64/74 (86%)
Frame = +3
Query: 632 YCSQMLSKEVDACVTDLLKELVRFQDRMYQKDPVKAKTKRRLVLGLREVXXXXXXXXXXC 691
YCSQ+LSKEVD+CVTDLLKELVRFQDR+YQKDPVKAKTKRRLV+GLREV C
Sbjct: 74214 YCSQVLSKEVDSCVTDLLKELVRFQDRLYQKDPVKAKTKRRLVMGLREVLKHLKLKKLKC 74393
Query: 692 VIISPNCEKIQSKG 705
VIISPNCEKIQSKG
Sbjct: 74394 VIISPNCEKIQSKG 74435
Score = 97.8 bits (242), Expect = 2e-18
Identities = 47/52 (90%), Positives = 49/52 (94%)
Frame = +1
Query: 705 GGLDDTLHTIIDYACEQNIPFVFALNRKALGRSLNKAVPVSVVGIFSYDGAQ 756
GGLD+TLHTIID ACEQNIPFVFALNRKALG +NKAVPVSVVGIFSYDGAQ
Sbjct: 75517 GGLDETLHTIIDCACEQNIPFVFALNRKALGHCVNKAVPVSVVGIFSYDGAQ 75672
Score = 73.6 bits (179), Expect = 4e-11
Identities = 34/62 (54%), Positives = 43/62 (69%)
Frame = +1
Query: 11 SEGIKLSADVKPFVPRFAGLNVAWLESSEACVFPSSAATYYPFVQEPPVTEQKIYTEDMA 70
S+GIKLSA+VKPFVP++A + VAW E SEACV P T YPFVQEP + + ++E
Sbjct: 40147 SQGIKLSAEVKPFVPKYATVTVAWSEPSEACVLPRYLTTCYPFVQEPSMDKYVFFSESCF 40326
Query: 71 FG 72
G
Sbjct: 40327 LG 40332
Score = 72.4 bits (176), Expect = 9e-11
Identities = 31/43 (72%), Positives = 40/43 (93%)
Frame = +3
Query: 494 RGRRMSQMKTPHNPLDSSAPLMKKGKQREIPKAKKPTSLKKII 536
+ ++++Q KTPHNPLDSSAPL+KKGKQRE+PKAKKPT LKK++
Sbjct: 67938 KNQQLNQGKTPHNPLDSSAPLVKKGKQREVPKAKKPTPLKKVL 68066
Score = 45.8 bits (107), Expect = 0.009
Identities = 21/37 (56%), Positives = 28/37 (75%)
Frame = +3
Query: 434 QDNFKNNVKKSQLPVQLDLGGMLTALEKKQHSQHAKQ 470
Q+ K + KKSQ+PV+LDLGGML LE+KQ ++ KQ
Sbjct: 63429 QETSKTSGKKSQIPVKLDLGGMLAVLEQKQQAEKLKQ 63539
Score = 40.4 bits (93), Expect = 0.39
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Frame = +2
Query: 191 SDGYHKRTDRKSRIIAKNVSTSKPEFEFTTLDFPELQG-AENNMSEIQKQPKWGPVHSVS 249
+D +K +RKS+ + K+ K F+ T DFPELQ +NN+ ++ K K GP V
Sbjct: 48284 TDRCNKFMNRKSKQVPKSEIVPKXAFQVTLSDFPELQSLGKNNVLDLPKH-KRGPSSPVE 48460
Query: 250 TDISLLR 256
D++L R
Sbjct: 48461 DDVTLPR 48481
Score = 39.7 bits (91), Expect = 0.66
Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 4/78 (5%)
Frame = +2
Query: 62 QKIYTEDMAFGASTFPPQYLSSEI----TLHPYAYSPYTLDSTQNVYSVPGSQYLYNQPS 117
Q + TED+++ S+ Q S + +L Y+ SPY+ D NVY + S + +N
Sbjct: 45353 QHVCTEDVSWDGSSSLSQSTSHSVMRSASLGEYSNSPYSSDVAPNVYPIASSHHDHNDSK 45532
Query: 118 CYRGFQTVKHRNENTCPL 135
+ + K E TCP+
Sbjct: 45533 YHSRSKIAKDYIEQTCPV 45586
Score = 38.5 bits (88), Expect = 1.5
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 6/64 (9%)
Frame = +1
Query: 757 DQFHKMVELTVAARQAYKTMLENVQQELVGEPRPQA----PPSLP--TQGPSCPAEDGPP 810
D FH+MV+LTV AR AYK M+ +++E E + SLP ++ P ++D P
Sbjct: 76738 DHFHRMVQLTVEARTAYKAMIAALEEEAAEEGSEKCNSTHEESLPETSKAPHVESDDDVP 76917
Query: 811 ALKE 814
E
Sbjct: 76918 NYSE 76929
>gi|397456025|gb|JH739475.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-13968, whole genome shotgun sequence
Length = 811756
Score = 106 bits (264), Expect = 6e-21
Identities = 52/82 (63%), Positives = 64/82 (78%), Gaps = 2/82 (2%)
Frame = +1
Query: 632 YCSQMLSKEVDACVTDLLKELVRFQDRMYQKDPVKAKTKRRLVLGLREVXXXXXXXXXXC 691
YC+Q+LSKE+D CVT LL+ELV FQ+R+YQKDP++AK +RRLV+GLREV C
Sbjct: 727489 YCNQVLSKEIDECVTLLLQELVSFQERIYQKDPMRAKARRRLVMGLREVTKHMKLNKIKC 727668
Query: 692 VIISPNCEKIQSKG--GLDDTL 711
VIISPNCEKIQSKG D+T+
Sbjct: 727669 VIISPNCEKIQSKGM*AFDETI 727734
Score = 74.7 bits (182), Expect = 2e-11
Identities = 36/52 (69%), Positives = 42/52 (80%)
Frame = +3
Query: 705 GGLDDTLHTIIDYACEQNIPFVFALNRKALGRSLNKAVPVSVVGIFSYDGAQ 756
GGLD+ L+ +I A EQ IPFVFAL RKALGR +NK VPVSVVGIF+Y GA+
Sbjct: 729138 GGLDEALYNVIAMAREQEIPFVFALGRKALGRCVNKLVPVSVVGIFNYSGAE 729293
Score = 47.8 bits (112), Expect = 0.002
Identities = 20/30 (66%), Positives = 27/30 (90%)
Frame = +1
Query: 506 NPLDSSAPLMKKGKQREIPKAKKPTSLKKI 535
NPLDS+AP +K+GK+REI K K+PT+LKK+
Sbjct: 722506 NPLDSTAPKVKRGKEREIAKLKRPTALKKV 722595
Score = 40.4 bits (93), Expect = 0.39
Identities = 19/29 (65%), Positives = 23/29 (79%)
Frame = +2
Query: 442 KKSQLPVQLDLGGMLTALEKKQHSQHAKQ 470
KKS+ PVQLDLG ML ALEK+Q + A+Q
Sbjct: 720710 KKSKTPVQLDLGDMLAALEKQQQAMKARQ 720796
>gi|397458920|gb|JH736581.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-9057, whole genome shotgun sequence
Length = 275725
Score = 36.2 bits (82), Expect = 7.3
Identities = 16/27 (59%), Positives = 16/27 (59%)
Frame = -3
Query: 786 GEPRPQAPPSLPTQGPSCPAEDGPPAL 812
G RPQAPP P Q P CPA G P L
Sbjct: 199424 GAGRPQAPPQPPPQVPPCPARPGRPPL 199344
>gi|397462614|gb|JH732887.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-3034, whole genome shotgun sequence
Length = 997287
Score = 35.8 bits (81), Expect = 9.5
Identities = 25/67 (37%), Positives = 27/67 (40%), Gaps = 19/67 (28%)
Frame = -2
Query: 777 LENVQQELVGEPRPQAPPSLPTQGP--------------SCPAEDGPPA-----LKEKEE 817
+EN QQ P P PP LPT P SCP GPPA L+E E
Sbjct: 831107 VENPQQPGPPAPAPAPPPGLPTTHPTPDTHPSFMTSGNWSCPVGPGPPAGSGYWLQEGEP 830928
Query: 818 PHYIEIW 824
P E W
Sbjct: 830927 PMPAEQW 830907
Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis
/genome.fa
Posted date: Oct 18, 2013 5:53 PM
Number of letters in database: 2,174,243,242
Number of sequences in database: 14,644
Lambda K H
0.311 0.128 0.365
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,976,550,050
Number of Sequences: 14644
Number of extensions: 29353473
Number of successful extensions: 150470
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 1343
Number of HSP's successfully gapped in prelim test: 1078
Number of HSP's that attempted gapping in prelim test: 131049
Number of HSP's gapped (non-prelim): 49958
length of query: 854
length of database: 724,747,747
effective HSP length: 139
effective length of query: 715
effective length of database: 722,712,231
effective search space: 516739245165
effective search space used: 516739245165
frameshift window, decay const: 40, 0.1
T: 13
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 81 (35.8 bits)