Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, 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. Database: Rattus_20norvegicus_20[refseq_20GCF_5F000001895.5_202014-07-01] 955 sequences; 2,870,184,193 total letters Query= NC_002331.1 Length=178733 Score E Sequences producing significant alignments: (Bits) Value seq232 105 8e-18 seq902 100 3e-16 seq219 100 3e-16 seq206 100 3e-16 seq174 100 3e-16 seq97 100 3e-16 seq129 98.7 1e-15 seq312 93.3 5e-14 >seq232 Length=115493446 Score = 105 bits (116), Expect = 8e-18 Identities = 142/198 (72%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 42992 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 43051 ||||| || || ||||||||| || || || | || || |||||||| || || || Sbjct 36866001 CTCCTCCTGGATGCTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAA 36865942 Query 43052 TATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 43111 ||||| | ||||||||| | || | ||||||||| ||| ||| || || | | Sbjct 36865941 AATGAGCCTCTGCTGGTCAGGGGGGATGCTCTCCTTATCCTGGATCTTGGCCTTCACATT 36865882 Query 43112 CGCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTAC 43171 | | | ||||| || | ||||| || | |||||||| ||||| || || ||||| || Sbjct 36865881 CTCGATGGTGTCACTGGGCTCCACCTCTAGGGTGATGGTCTTGCCGGTCAGGGTCTTCAC 36865822 Query 43172 AAAGATTTGCATTTTTAC 43189 |||||||||||||| || Sbjct 36865821 GAAGATTTGCATTTTGAC 36865804 >seq902 Length=36071 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 13893 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 13952 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 13953 ATACTAACGAGGA 13965 >seq219 Length=114033958 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 89403575 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 89403634 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 89403635 ATACTAACGAGGA 89403647 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 89440571 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 89440630 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 89440631 ATACTAACGAGGA 89440643 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 89449767 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 89449826 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 89449827 ATACTAACGAGGA 89449839 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 89468547 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 89468488 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 89468487 ATACTAACGAGGA 89468475 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 91162446 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 91162505 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 91162506 ATACTAACGAGGA 91162518 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 91182270 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 91182329 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 91182330 ATACTAACGAGGA 91182342 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 91233136 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 91233195 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 91233196 ATACTAACGAGGA 91233208 Score = 93.3 bits (102), Expect = 5e-14 Identities = 137/194 (71%), Gaps = 0/194 (0%) Strand=Plus/Plus Query 42996 TTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATG 43055 || || || ||||| |||| || || || | || || |||||||| || || || ||| Sbjct 14315745 TTCTGGATGTTGTAGTCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAAGATG 14315804 Query 43056 AGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCC 43115 || | ||||||||| | || | || |||||| ||| ||| || || | || Sbjct 14315805 AGCCTCTGCTGGTCAGGGGGGATGCCCTCCTTATCCTGGATCTTGGCCTTCACGTTCTTG 14315864 Query 43116 ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAG 43175 | ||||| || | ||||| || | |||||||| ||||| || || ||||| || ||| Sbjct 14315865 ATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCACGAAG 14315924 Query 43176 ATTTGCATTTTTAC 43189 ||||||||||| || Sbjct 14315925 ATTTGCATTTTGAC 14315938 Score = 84.2 bits (92), Expect = 3e-11 Identities = 61/71 (86%), Gaps = 0/71 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| | | ||||||||||||||||||||| || ||||||| || |||||||||||| Sbjct 14707913 TCTCCCCATCGGGGAATCGAACCCTGGTCTCCTGCATGACAGGTGGGGATACTCACCACT 14707972 Query 60125 ATACTACCGAG 60135 |||||| |||| Sbjct 14707973 ATACTAACGAG 14707983 >seq206 Length=52716770 Score = 100 bits (110), Expect = 3e-16 Identities = 66/73 (90%), Gaps = 0/73 (0%) Strand=Plus/Minus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | ||||||||||||| ||||||||||||||||||||| |||||||||||| Sbjct 36623728 TCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACT 36623669 Query 60125 ATACTACCGAGGA 60137 |||||| |||||| Sbjct 36623668 ATACTAACGAGGA 36623656 Score = 98.7 bits (108), Expect = 1e-15 Identities = 65/72 (90%), Gaps = 0/72 (0%) Strand=Plus/Minus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 36620409 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 36620350 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 36620349 TACTAACGAGGA 36620338 >seq174 Length=112626471 Score = 100 bits (110), Expect = 3e-16 Identities = 67/75 (89%), Gaps = 0/75 (0%) Strand=Plus/Minus Query 60063 TTTCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCA 60122 || |||| || | ||||||||||||| ||||||||||||||||||||| |||||||||| Sbjct 55621361 TTCCTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCA 55621302 Query 60123 CTATACTACCGAGGA 60137 |||||||| |||||| Sbjct 55621301 CTATACTAACGAGGA 55621287 >seq97 Length=173707219 Score = 100 bits (110), Expect = 3e-16 Identities = 141/198 (71%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 42992 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 43051 ||| || || || |||||||||| || || || | || || |||||||| || || || Sbjct 138042921 CTCTTTCTGGATGTTGTAATCAGAGAGGGTGCGGCCATCTTCCAGCTGCTTGCCGGCAAA 138042862 Query 43052 TATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 43111 ||||| | ||||||||| | || | || ||| || ||| ||| || || | | Sbjct 138042861 GATGAGCCTCTGCTGGTCAGGGGGGATGCCCTCTTTATCCTGGATCTTGGCCTTCACGTT 138042802 Query 43112 CGCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTAC 43171 | | | ||||| || | ||||| || | |||||||| ||||| || || ||||| || Sbjct 138042801 CTCGATGGTGTCACTGGGCTCCACCTCCAGGGTGATGGTCTTGCCGGTCAGGGTCTTCAC 138042742 Query 43172 AAAGATTTGCATTTTTAC 43189 |||||||||||||| || Sbjct 138042741 GAAGATTTGCATTTTGAC 138042724 Score = 82.4 bits (90), Expect = 9e-11 Identities = 146/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Plus Query 42971 CAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTC 43030 || ||| | ||| | ||| |||||||||||| ||||| |||| || ||| || | || Sbjct 138628772 CAGCACGAGATGGAGAGTGGACTCCTTTTGAATGTTGTAGTCAGACAAAGTACGGCCATC 138628831 Query 43031 ATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTC 43090 || | |||||||||||| || || | | |||||| || | || | | ||||| || Sbjct 138628832 TTCCAACTGCTTACCAGCAAAGATCAACCTCTGCTGATCAGGAGGAATTCCTTCCTTATC 138628891 Query 43091 CATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGT 43150 | ||| || || | | | | ||||| | ||| || |||| ||||||||| Sbjct 138628892 CTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACCTCGAGCGTGATGGT 138628951 Query 43151 TTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || || || || ||||| ||||| || ||||| Sbjct 138628952 CTTCCCTGTAAGGGTCTTCACAAAAATCTGCAT 138628984 >seq129 Length=145729302 Score = 98.7 bits (108), Expect = 1e-15 Identities = 65/72 (90%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | ||||||||||||| ||||||||||||||||||||| ||||||||||||| Sbjct 34287931 CTCCCCGTCGGGGAATCGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTCACCACTA 34287990 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 34287991 TACTAACGAGGA 34288002 Score = 89.7 bits (98), Expect = 6e-13 Identities = 63/72 (88%), Gaps = 0/72 (0%) Strand=Plus/Plus Query 60066 CTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACTA 60125 |||| || | |||||| |||||| ||||||||||||||||||||| ||||| ||||||| Sbjct 31883685 CTCCCCGTCGGGGAATTGAACCCCGGTCTCCCGCGTGACAGGCGGGGATACTAACCACTA 31883744 Query 60126 TACTACCGAGGA 60137 ||||| |||||| Sbjct 31883745 TACTAACGAGGA 31883756 >seq312 Length=159970021 Score = 93.3 bits (102), Expect = 5e-14 Identities = 65/74 (88%), Gaps = 0/74 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | |||||| |||||| ||||||| ||||||||||||| |||||||||||| Sbjct 9411115 TCTCCCCGTCGGGGAATTGAACCCCGGTCTCCTGCGTGACAGGCGGGGATACTCACCACT 9411174 Query 60125 ATACTACCGAGGAT 60138 |||||| ||||||| Sbjct 9411175 ATACTAACGAGGAT 9411188 Score = 93.3 bits (102), Expect = 5e-14 Identities = 65/74 (88%), Gaps = 0/74 (0%) Strand=Plus/Plus Query 60065 TCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATACTCACCACT 60124 ||||| || | |||||| |||||| ||||||| ||||||||||||| |||||||||||| Sbjct 10098978 TCTCCCCGTCGGGGAATTGAACCCCGGTCTCCTGCGTGACAGGCGGGGATACTCACCACT 10099037 Query 60125 ATACTACCGAGGAT 60138 |||||| ||||||| Sbjct 10099038 ATACTAACGAGGAT 10099051 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 571810773927400