New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 3546221NA (NA)4 (0.050) 4/166 NT NA intergenic (+22/‑338) nfuA/gntT Fe/S biogenesis protein, putative scaffold/chaperone protein/gluconate transporter, high‑affinity GNT I system
?NC_000913 = 3546253 NA (NA)noncoding (32/36 nt) REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences

TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTgcccga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3546126‑3546221
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGCACACC  <  NC_000913/3546253‑3546149
                                                                                                                                                                                                         
TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCC                                                                                                       <  2:421512/100‑1
TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCC                                                                                                       >  2:2102764/1‑100
 GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                      >  1:205404/1‑100
 GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                      >  1:2129914/1‑100
 GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                      >  2:1846540/1‑100
 GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGC                                                                                                         <  1:200226/97‑1
  AACGAATTCCCGGAGCTGAAAGGCGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTGCTACTAATAAGTTCTCACCTCTTTTGTAGATTGCGCGA                                                                                                     >  1:1903059/1‑100
                            GCGCGATCTCACCGAACACCAGAGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGC                                                                           <  1:262212/100‑1
                             CGCGATCTCACCGAACACCAGCGCGGCTAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCA                                                                          <  1:662369/100‑1
                               CGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAAT                                                                        <  1:888457/100‑1
                                   CTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCTCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTAC                                                                    <  1:1580059/100‑1
                                                                                                GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC       <  2:2143134/100‑1
                                                                                                GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC       <  2:1685894/100‑1
                                                                                                GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCG        <  2:1037429/99‑1
                                                                                                  CCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGCAC     >  1:1894810/1‑100
                                                                                                    GAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGgaagagc   >  2:1005574/1‑93
                                                                                                     AAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGCACACC  <  1:884088/100‑1
                                                                                                                                                                                                         
TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTgcccga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3546126‑3546221
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGCACACC  <  NC_000913/3546253‑3546149

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.