New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3767625	26 (0.650)	6 (0.160)	4/294	NT	19.6%	noncoding (30/99 nt)	RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	CP009273	= 3767659	NA (NA)					noncoding (64/99 nt)	RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP271 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

AAGAAGAAGATGACATTGCCCGTCTGGTGATTGGTATTGCTGCCCGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGTTAATACTATGAAAGCATTACATTTTGGCGCAGGTAATATCGGTCGTGGCTTTATCGGTAAACTGCTGGCAGACGCGGGTATCCAACTGACGTTTGCCGA  >  CP009273/3767382‑3767875                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                           cagaagaagaTACCGCTTCCCCTCTGGTGATTGTTATTGCTGCCCGTACCAACGAGCACATTCAGTTTATCACCAGCCTGCCCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCTCACACCACCAGCGTGGATGAAGTGCGGGAACTGCTGGCAGGTCGTAAGTAGTCCAATCCCCCCCTCTCCACGTGGGGTAGGTGAGGTTAATTGCCTGCTGCGCTACGCTTATCAGGCCTACAGGATGCTTCACAATTTGTGGTATTTGCACg                                                                                                                                                                                                                              <  2:213258/273‑1 (MQ=255)                 tGCCCGTCTGGTGATTGGTATTGCTGCCCGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCACCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGACTTTGCACGTTCTTGTAGGCCgaac                                                                                                                                                                                                              >  2:211635/1‑271 (MQ=255)                                      tgctgcCCGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCACCCCCTCTCCACCTGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTCTCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTTTCGGCCGGATCAGGCGCtttntgcccacccc                                                                                                                                                                                         >  2:60017/1‑262 (MQ=255)                                        ctgcCCGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCCATGCACCGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCCGGTCGTAAGTAATCCACTCCCACCCTCTCCACATGGAGAAGGTGTGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAACTTGACCGTTCTAGTAGTCCGGATAAGGCGCTTCATNCGCCTCCGgc                                                                                                                                                                                       >  2:73497/1‑274 (MQ=255)                                            ccGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCttc                                                                                                                                                                                  >  1:49299/1‑273 (MQ=255)                                                   aggtacagcttttaGGTTATAACCAGACTGACCAATGCACTGGATGATGAGTCCGGCATCGAGCGTCTGGCACAAACCACCAGCGTGGATGAAGGGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCtctc                                                                                                                                                                           <  1:146097/262‑1 (MQ=39)                                                                   ttATCAGCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATTGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGCATTTGCACGTTCTTGTAGGACGGATAATGGGCTTACGCCGAATCAGGCGCCNCACCTCTCCacactacaagtgtt                                                                                                                                                            >  2:437223/1‑264 (MQ=255)                                                                        aCCAGCCTGACCAATGCACTGGAGGATGAGTCCGGCATCGAGCGTCGGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTg                                                                                                                                                      <  1:60018/275‑1 (MQ=255)                                                                          cAGCCTGACCAATGCACTGGATGATGATTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGCTGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTggtgga                                                                                                                                                     >  1:430129/1‑270 (MQ=255)                                                                            gCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTCCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAAtt                                                                                                                                                                                                                                    >  1:76680/1‑193 (MQ=255)                                                                                gACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCa                                                                                                                                                                                                                                <  2:76679/193‑1 (MQ=255)                                                                                            ggATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCa                                                                                                                                   <  1:211637/274‑1 (MQ=255)                                                                                                           cATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCGGGAACTGCTGGCATGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTaaa                                                                                                                    <  1:73498/274‑1 (MQ=255)                                                                                                                                    aGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTACAAACATTGATGAAGGTTAATACTATGa                                                                                          <  1:437230/275‑1 (MQ=255)                                                                                                                                                          tgctgGCAGGTCCTAAGTAATCCAATCCCACCCTCTCCACATGGGGAAGGTGGGTTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGTTAATACTATGAAAGCATTACATTTTGGCGCAgg                                                                    <  1:321371/275‑1 (MQ=255)                                                                                                                                                                                        cccTCTCCGCATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAgg                                                                                                                                                   >  2:109747/1‑166 (MQ=255)                                                                                                                                                                                            ctcCGCATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGaaa                                                                                                                                               <  1:109748/166‑1 (MQ=255)                                                                                                                                                                                                   tGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTtgtaggcc                                                                                                                                                                                                                  <  1:140454‑M2/92‑9 (MQ=255)                                                                                                                                                                                                       gaAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAagaacgtgcaaattcaacaaat                                                                                                                                                                                                                                      >  1:634639‑M1/1‑46 (MQ=255)                                                                                                                                                                                                       gaAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGAt                                                                                                                                                                                                              <  2:140453/92‑1 (MQ=255)                                                                                                                                                                                                       gaAGGTGGGGTTAATTGCATGATGCGCTACACTTATCAGGCCTACAagaacgtgcaaattcaaca                                                                                                                                                                                                                                         >  2:97141‑M1/1‑46 (MQ=255)                                                                                                                                                                                                         aGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGt                                                                                                     >  2:61387/1‑195 (MQ=255)                                                                                                                                                                                                           gTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAagaacgtgcaaattcaacaaattgtg                                                                                                                                                                                                                                  <  2:634625‑M1/68‑27 (MQ=255)                                                                                                                                                                                                           gTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAagaacgtgcaaattcaacaaatt                                                                                                                                                                                                                                     <  1:97142‑M1/65‑24 (MQ=255)                                                                                                                                                                                                             ggggTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGTTAAt                                                                                                 <  1:61388/195‑1 (MQ=255)                                                                                                                                                                                                                     ttGCCTGATGCGCTACGCTTATCAGGCCTACAGGATg                                                                                                                                                                                                                                                       >  2:545499/1‑37 (MQ=33)                                                                                                                                                                                                                       gCCTGATGCGCTACGCTTATCAGGCCTNCAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGTTCATACTATGAAAGCATTACATTTTGgcgc                                                                       <  1:526037/211‑1 (MQ=255)                                                                                                                                                                                                                         cTGATTCGCTACACTTATCAGGCCTACAGGACGGATCACAATTTGTAGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCCATGCTCCTCTCCTCACGGAGAGGGTTGGGGTGAGGGAAAAGCCTCCCCCCAGCCCTCTCGGGTAAAAAACTTGATGAAGGTTAATACTATGAAAGCATTACATTTTGGCGAATGAAATAACGGT‑‑AGAC‑TTATCGGAAAACTGCTGGCAACCGCGGGTAGCGACCACACGTTTGccta  >  2:50315/1‑273 (MQ=255)                                                                                                                                                                                                                         cTGATGCGCTACGCTTATCAGGCCTACAGGATGCATc                                                                                                                                                                                                                                                   <  1:545510/37‑1 (MQ=255)                                                                                                                                                                                                                          tGATGCGCTACGCTTATCAGGCCTACAagaacgtgcaaattcaacaaat                                                                                                                                                                                                                                      >  1:563781‑M1/1‑27 (MQ=255)                                                                                                                                                                                                                          tGATGCGCTACGCTTATCAGGCCTACAGGATGCAGCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCACAGCCCTCTCGGGTAAAAACATTGATGAAGGTTAATANTATGAAAGNATTACAtttt                                                                            >  1:476673/1‑203 (MQ=255)                                                                                                                                                                                                                              gcgcTACGCTTATCAGGCCTACAagaacgtgcaaattcaacaaattgtg                                                                                                                                                                                                                                  <  2:563769‑M1/49‑27 (MQ=255)                                                                                                                                                                                                                              gcgcTACGCTTATCAGGACTACATGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACTCCGCAGCCTGCCCTGCCCCTCTCCTCACGGGGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGCACGTTAATCCTATGAAAGCATTACATTTTGgcg                                                                        <  2:476664/203‑1 (MQ=255)                                                                                                                                                                                                                                            aGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCatc                                                                                                                                                                             >  2:716512/1‑88 (MQ=255)                                                                                                                                                                                                                                             ggCCTACAagaacgtgcaaattcaacaaattgtgatgcatcctgtaggcctgataagcgtagcgcatcaggcaattaaccccaccttctcca                                                                                                                                                                        <  1:140454‑M1/92‑85 (MQ=255)                                                                                                                                                                                                                                                cTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTCCCCATctcct                                                                                                                                                                         <  1:716526/88‑1 (MQ=255)                                                                                                                                                                                                                                                 tACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGcc                                                                                                                                >  1:41733/1‑128 (MQ=255)                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                           AAGAAGAAGATGACATTGCCCGTCTGGTGATTGGTATTGCTGCCCGTAACAACGAGCACATTCAGGTTATCACCAGCCTGACCAATGCACTGGATGATGAGTCCGTCATCGAGCGTCTGGCACACACCACCAGCGTGGATGAAGTGCTGGAACTGCTGGCAGGTCGTAAGTAATCCAATCCCACCCTCTCCACATGGAGAAGGTGGGGTTAATTGCCTGATGCGCTACGCTTATCAGGCCTACAGGATGCATCACAATTTGTTGAATTTGCACGTTCTTGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTGCCCCTCTCCTCACGGAGAGGGTTTGGGTGAGGGAAAAGCCTCACCCCAGCCCTCTCGGGTAAAAACATTGATGAAGGTTAATACTATGAAAGCATTACATTTTGGCGCAGGTAATATCGGTCGTGGCTTTATCGGTAAACTGCTGGCAGACGCGGGTATCCAACTGACGTTTGCCGA  >  CP009273/3767382‑3767875

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ 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.