New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	409056 =	NA (NA)	11 (0.090)	7/164	NT	NA	noncoding (5/37 nt)	REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP34 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	409089 =	NA (NA)					intergenic (+139/+19)	ykiA/rdgC	pseudogene/nucleoid‑associated ssDNA and dsDNA binding protein; competitive inhibitor of RecA function

GCAGCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/409161‑409056 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAAAT  >  NC_000913/409089‑409187                                                                                                                                                                                                               GCAGCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTA                                                                                                           <  2:2889720/100‑1  CAGCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTAT                                                                                                          >  2:1432523/1‑100   AGCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATC                                                                                                         <  1:955975/100‑1    GCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCC                                                                                                        <  2:3676347/100‑1     CGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCG                                                                                                       <  1:764585/100‑1     CGTTAATGCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCG                                                                                                       >  1:1934918/1‑100      ttccgatctAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCG                                                                                                       <  2:2115058/90‑1      GTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      <  1:1505081/100‑1      GTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      <  2:2361102/100‑1      GTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      <  2:2360803/100‑1      GTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      >  1:701542/1‑100       TTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGC                                                                                                     <  1:350973/100‑1       TTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGC                                                                                                     <  2:1976147/100‑1       TTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATCGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      <  1:2868275/99‑1        TAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAAAGTTAATTGCTGATTTTCCTTTAATACCGGATGCGACGCCTGCCGCGTCTTATCCGG                                                                                                      >  1:2216330/1‑98               AAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGagatcggaag                                                                                             >  1:2115045/1‑90                                                                   CTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTT                                         >  1:99330/1‑100                                                                    tcTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTG                                        <  2:863574/98‑1                                                                       AATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAga                                     >  1:863569/1‑98                                                                       AATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAAT                                     >  2:2548584/1‑100                                                                       AATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAAT                                     >  2:1332221/1‑100                                                                       AATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAAT                                     >  1:2315610/1‑100                                                                        ATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATT                                    >  2:1604311/1‑100                                                                         TGCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCTCCTAATCCTTCAATCAGGTTTTGAATTA                                   >  1:3434975/1‑100                                                                          GCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCCGGTTTTGAATTAA                                  >  2:673442/1‑100                                                                          GCCGGATGCGACGCCTGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAA                                  >  2:2303553/1‑100                                                                                         TGCCGCGTCTTATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACC                   >  2:2069901/1‑100                                                                                                    ATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGA        >  2:1094470/1‑100                                                                                                    ATCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGA        >  2:536233/1‑100                                                                                                     TCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGAT       >  2:50766/1‑100                                                                                                     TCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGAT       >  1:1363320/1‑100                                                                                                     TCCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGAT       <  1:3356085/100‑1                                                                                                      CCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAGCGCTGCCAGTTCACCAGTCATCAGGA        >  1:390143/1‑98                                                                                                      CCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATG      >  2:602822/1‑100                                                                                                      CCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATG      >  2:956674/1‑100                                                                                                      CCGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATG      >  1:510573/1‑100                                                                                                       CGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTACTCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGA     >  1:2054685/1‑100                                                                                                       CGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGA     >  2:1527814/1‑100                                                                                                       CGGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATG      <  2:3185400/99‑1                                                                                                       CGGCATTAAAGGAAAATCAGAAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGA     >  1:2262143/1‑100                                                                                                        GGCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAA    >  1:1707785/1‑100                                                                                                         GCATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAAA   >  2:2731986/1‑100                                                                                                          CATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAAAT  >  2:465958/1‑100                                                                                                          CATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAAA   >  2:999040/1‑99                                                                                                                                                                                                               GCAGCGTTAATTCAAAACCTGATTGAAGGATTAGGTGGCGAAGCACAACGTTAATTGCTGATTTTCCTTTAATGCCGGATGCGACGCCTGCCGCGTCTTATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/409161‑409056 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcATTAAAGGAAAATCAGCAATTAACGTTGTGCTTCGCCACCTAATCCTTCAATCAGGTTTTGAATTAACGCTGCCAGTTCACCAGTCATCAGGATGAAAT  >  NC_000913/409089‑409187

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.