Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	4,123,617	IS2 (–) +5 bp	coding (836‑840/1026 nt)	cytR ←	DNA‑binding transcriptional repressor CytR

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4123617 =	5 (0.200)	24 (0.940)	22/486	0.2	82.5%	coding (840/1026 nt)	cytR	DNA‑binding transcriptional repressor CytR
	?	NC_000913	4498181 =	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region
*	?	NC_000913	= 4123621	5 (0.200)	26 (1.020)	26/486	0.1	83.6%	coding (836/1026 nt)	cytR	DNA‑binding transcriptional repressor CytR
	?	NC_000913	= 4499511	NA (NA)					noncoding (1331/1331 nt)	IS2	repeat region

TCACTACCGCCTGCAAGGCTATGTTCAGGCGCTGCGTCGCTGCGGCATTATGGTTGATCCGCAATACATCGCCCGTGGCGACTTCACCTTCGAAGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4123860‑4123617 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTT  >  NC_000913/4498181‑4498408                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          cctCTACCGCCTGCAAGGCTCGTTTCCGGCGCTGCGTAGCCGCGGCATTATGGTTACTCCGCAATACCTCGCCCGTGGCGACTTCACCTTCGAAGCCGGAAGCAAACCGATGCAGCACCTGCTTGACCTTCCACACCCGCCTCCTGCTGTCGTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGCCCCGGAAGACCTTTCCATAATCGGTTTTTAGCCTG                                                                                                                                                                                                                               <  2:222603/248‑1                 GGCTATGTTCAGCCGCGTCGTCGCTGCGGCATTATGGTTGACCCGCAATCCACCGCCCGTGGCGACTTCCCCTTCGAAGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCA                                                                                                                                                                                                               <  2:293523/251‑1                                                                        CCCGTGGCGACTTCACCTTCGAAGCCGGAAGCAAAGCGCTGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGCTGGGATGGCGCTCGGCGCACTTTCTCAGGCAAACCGCCAGGGGCTGAAAGACCCGGAAAACCTTTACATAAACGGTTTTTAGAATGGACCCCTGAATCTCCAGACAACAAATATCACTTAAATAAGTGATAGTCTTAATCCTAGTTTTTAGACTAGT                                                                                                                                                        >  2:149580/1‑251                                                                            TGGCGACTTCACCTTCGAAGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATT                                                                                                                                                    >  1:214955/1‑251                                                                                           CGAAGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATT                                                                                                                                     >  1:39724/1‑251                                                                                              AGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGCTCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCAAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAACTAAGTGATAGTCTTAATACTAGTTTTTAGACTAGACATTGTAGAACAGCTGATTGAT                                                                                                                                  >  2:107742/1‑251                                                                                                     AGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTT                                                                                                                             >  1:47842/1‑249                                                                                                          AGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCG                                                                                                                      >  1:108341/1‑251                                                                                                            CGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCTCTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGA                                                                                                                    <  1:224074/251‑1                                                                                                             GATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGG                                                                                                                     >  1:242305/1‑249                                                                                                                                                    gGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATT                                                                            <  2:108341/250‑1                                                                                                                                                     GTCTTCTGCCATATCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTG                                                                           <  1:204535/251‑1                                                                                                                                                     GTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATT                                                                            <  1:92324/250‑1                                                                                                                                                            GCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCACAATTGTTCAGC                                                                     <  1:279392/250‑1                                                                                                                                                                            GGCGCTCGGCTCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTGTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGTGTACCACACAGGAAAATATCTCAATTGTACAGCAGAGCTTTGACCCGGGG                                                    <  2:170222/251‑1                                                                                                                                                                            GGCGCTCGGCGCACTTTCTCAAGCAAAACGCCATGGGCTGAAAGTCCCGGAAGACCCTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTACAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAGTCTAGTTTTTAGACTAGTCATTGGAGAACAGATGAGTGATGTCTTAGGGCCGGAGAAACGCATACGGCGGACCACACATGAAAAGATCGCATTTGTTCAGCAGAGCTTTGAACCGGGG                                                    <  2:170230/251‑1                                                                                                                                                                                  CGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACG                                              >  1:227445/1‑251                                                                                                                                                                                                  GCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATATTCGGTTTTTAGCCTGGCCCCCTGAATATCCAGACAACCAATATCAATTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGCCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCC                              >  2:52556/1‑251                                                                                                                                                                                                      AACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGC                           >  1:17363/1‑250                                                                                                                                                                                                               GGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAAGCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGT                 <  2:39724/251‑1                                                                                                                                                                                                                  TGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGC              >  1:55626/1‑251                                                                                                                                                                                                                      AGTCCCGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCC          >  1:189531/1‑251                                                                                                                                                                                                                           CGGAAGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCC      >  1:40457/1‑250                                                                                                                                                                                                                               AGACCTTTCCATAATCGGTTTTTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGACAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTT  >  1:98401/1‑250                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          TCACTACCGCCTGCAAGGCTATGTTCAGGCGCTGCGTCGCTGCGGCATTATGGTTGATCCGCAATACATCGCCCGTGGCGACTTCACCTTCGAAGCCGGAAGCAAAGCGATGCAGCAGCTGCTTGATCTTCCACAACCGCCTACTGCTGTCTTCTGCCATAGCGATGTGATGGCGCTCGGCGCACTTTCTCAGGCAAAACGCCAGGGGCTGAAAGTCCCGGAAGACCTTTCCATAATCGGTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4123860‑4123617 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTT  >  NC_000913/4498181‑4498408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.