New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1011918 =	NA (NA)	8 (0.060)	12/162	NT	NA	intergenic (+47/‑83)	uup/pqiA	replication regulatory ABC‑F family DNA‑binding ATPase/paraquat‑inducible, SoxRS‑regulated inner membrane protein
	?	NC_000913	1011945 =	NA (NA)					noncoding (27/29 nt)	REP87 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP87 (repetitive extragenic palindromic) element; contains 1 REP sequences

GGCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1012021‑1011918 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcaTGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCTCGC  >  NC_000913/1011945‑1012043                                                                                                                                                                                                             GGCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCA                                                                                                         <  2:3658191/100‑1  GCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAACGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAG                                                                                                        >  2:723741/1‑100  GCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAG                                                                                                        <  2:3556200/100‑1  GCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAG                                                                                                        <  1:1950034/100‑1   CATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGG                                                                                                       <  2:2943524/100‑1    ATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGC                                                                                                      <  1:1874325/100‑1    ATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGC                                                                                                      <  2:822955/100‑1     TGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGCA                                                                                                     >  2:965419/1‑100     TGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGCA                                                                                                     >  2:422262/1‑100     TGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGC                                                                                                      <  2:1267271/99‑1      GATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCAT                                                                                                    <  1:5024/100‑1      GATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCAT                                                                                                    >  2:145925/1‑100      GATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGCA                                                                                                     >  1:3467156/1‑99      GATGATGTTCGCACATTGGAACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCAT                                                                                                    <  2:3263417/100‑1       ATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCATG                                                                                                   <  2:724248/100‑1       ATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCATG                                                                                                   <  1:1972189/100‑1        TGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACACAGTGTTGGTTTTCATGCCTGCTAAACCACGTTCATCAGGCcaat                                                                                                  >  2:2691509/1‑96         GATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCATGAA                                                                                                 <  1:93817/100‑1                         TACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCATGAAAACCAACACTTTGTTA                                                                                 <  1:145927/100‑1                                                      TGACTAACAAAGTGTTGGTTTTCATGCCTGATGAACTGGGTTTATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGG                                                    <  1:2187896/100‑1                                                                        TTTTCATGCCTGATAAACCCAGTTCATCAGGCATTAAAACCAACACTTTGTTAGTTATCTGTAAAATAGCGCATCATTAAGGAGTACCAATTTGCGAACA                                  >  2:2815940/1‑100                                                                            CATGCCTGATAAACCCAGTTCATCAGGCCTGAAAACCAACACTTTGTTAGTCATCTGTAAAATCGCGCATCATTAAGGAGTACCAATGTGCGAACATC                                >  1:1415735/1‑98                                                                              TGCCTGATAAACCCAGTTCATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCA                            >  1:3900405/1‑100                                                                                CCTGATAAACCCAGTTCATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATG                          >  1:3138262/1‑100                                                                                      AAACCCAGTTCATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGA                    >  1:1318806/1‑100                                                                                       AACCCAGTTTATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAA                   >  2:1447424/1‑100                                                                                                 ATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTG         >  1:3715340/1‑100                                                                                                 ATCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTG         <  2:4006726/100‑1                                                                                                  TCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACAggatgt        <  1:515216/100‑7                                                                                                  TCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGT        <  1:550341/100‑1                                                                                                  TCAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGT        <  1:4080831/100‑1                                                                                                   CAGGCATGAACACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTG       >  2:2456727/1‑100                                                                                                   CAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTG       <  1:1027069/100‑1                                                                                                   CAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTG       <  1:2911123/100‑1                                                                                                   CAGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTG       >  2:794294/1‑100                                                                                                    AGGCATGAAAACCAACCCTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGGACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGC      <  2:25402/100‑1                                                                                                    AGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGC      >  2:131217/1‑100                                                                                                    AGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGC      >  1:1943576/1‑100                                                                                                    AGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGC      >  2:1216991/1‑100                                                                                                    AGGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACACCCTGTGC      <  1:2185199/100‑1                                                                                                     nGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCT     >  2:2192277/2‑100                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCTTCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACTTCCTGTGC      <  2:178387/99‑1                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCT     >  1:955201/1‑100                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCT     >  1:1620298/1‑100                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCT     >  2:448659/1‑100                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCT     <  1:3140363/100‑1                                                                                                     GGCATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGC      >  2:436400/1‑99                                                                                                       CATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCTCG   >  2:4091025/1‑100                                                                                                        ATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCTCGC  >  1:1821724/1‑100                                                                                                        ATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCACGAAGCACATCCTGTGCTCGC  <  2:2954721/100‑1                                                                                                        ATGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTCCGAACATCATCATGCCGCGAAGCATATCCTGTGCTCGC  <  2:2578639/100‑1                                                                                                                                                                                                             GGCATGATGATGTTCGCACATTGGTACTCCTTAATGATGCGCTATTTTACAGATGACTAACAAAGTGTTGGTTTTCATGCCTGATAAACCCAGTTCATCAGGCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1012021‑1011918 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcaTGAAAACCAACACTTTGTTAGTCATCTGTAAAATAGCGCATCATTAAGGAGTACCAATGTGCGAACATCATCATGCCGCGAAGCACATCCTGTGCTCGC  >  NC_000913/1011945‑1012043

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.