New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3555795 =	NA (NA)	10 (0.070)	7/162	NT	NA	intergenic (+5/+38)	malT/rtcA	mal regulon transcriptional activator/RNA 3'‑terminal phosphate cyclase
	?	NC_000913	3555821 =	NA (NA)					intergenic (+31/+12)	malT/rtcA	mal regulon transcriptional activator/RNA 3'‑terminal phosphate cyclase

GAGCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3555901‑3555795 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggctTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATATTGG  >  NC_000913/3555821‑3555918                                                                                                                                                                                                               GAGCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTA                                                                                                           <  2:419434/100‑1   GCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATC                                                                                                         >  2:3975240/1‑100   GCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATC                                                                                                         >  1:2716555/1‑100   GCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATC                                                                                                         >  1:211035/1‑100    CGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCC                                                                                                        <  1:1211285/100‑1    CGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGCAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCC                                                                                                        <  1:2726258/100‑1     GTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCG                                                                                                       <  2:185558/100‑1      TTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGGGTAACGCGGGTGGGCATTGATTGATGCAGGGATGTAAGGCGGAACTGGCGCGTCATCCGG                                                                                                      >  1:2458968/1‑100      TTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGG                                                                                                      >  1:661601/1‑100      TTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGG                                                                                                      <  1:3975220/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  1:164087/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  2:1997191/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  2:1357664/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  2:1305263/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  2:2097799/100‑1       TTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAAAGATCCAGAGATGTAAGCCGGATCTGGCGCGCTAACCGGC                                                                                                     >  1:1230796/1‑100       TTCTGGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGCATCTGGCGCGTTATCCGGC                                                                                                     <  1:3223162/100‑1        tcgtggCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATGGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGC                                                                                                     <  1:3651904/93‑1        TCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCT                                                                                                    <  2:1472479/100‑1        TCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCT                                                                                                    <  2:1472460/100‑1        TCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCT                                                                                                    <  2:1081794/100‑1        TCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGGGAGCATTGAATGATGCAGAGATGTAAGCGGGATCTGGCGCGTTATGCGGCT                                                                                                    >  1:3764454/1‑100            GCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATAACGCGCCAGATCCGGCTTACA                                                                                                <  1:32363/100‑1                                                                     ATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAAC                                       >  2:1104769/1‑100                                                                            GATGTAAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCCCACCCGCGCTACGCCATCTGTTTCTATCAAACTAAACCCCACCG                                >  1:1371093/1‑100                                                                            GATGTAAGCCGGAACTGGCGCGTTATCCGGCTTACATCCCTGCATCATTCACTGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCCCCG                                >  1:3592891/1‑100                                                                              TGTAAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGC                              >  1:3603257/1‑100                                                                              TGTAAGCCGGATCTGGCGCGTTATCCGGCATACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGC                              >  2:1976157/1‑100                                                                               GTAAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCA                             >  2:87151/1‑100                                                                               GTAAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCA                             >  1:1440787/1‑100                                                                                 AAGCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAG                           >  2:1616502/1‑100                                                                                  AGCCGGATCTGGCGCGTTATCCGGCTGGTATCTTTGCATCCTTCAATGCTCACCCGCGTTACGCCATCTGTTTCTCTCAAACTAAACCGCACCGGCTAGA                          >  1:273657/1‑100                                                                                   GCCGGATCTGGCGCGTTATCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAA                         >  1:1388084/1‑100                                                                                                     TCCGGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGAT       <  1:635962/100‑1                                                                                                        GGCTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATATn    <  1:2089716/100‑2                                                                                                          CTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATct     >  1:1526061/1‑95                                                                                                          CTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATATTGG  <  2:2074717/100‑1                                                                                                          CTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATATTGG  >  2:1095511/1‑100                                                                                                          CTTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGC          >  1:3142710/1‑92                                                                                                                                                                                                               GAGCGTTTCTTGCCGGTGCGGTTTAGTTTGATAGAAACAGATGGCGTAACGCGGGTGAGCATTGAATGATGCAGAGATGTAAGCCGGATCTGGCGCGTTATCCGGCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3555901‑3555795 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggctTACATCTCTGCATCATTCAATGCTCACCCGCGTTACGCCATCTGTTTCTATCAAACTAAACCGCACCGGCAAGAAACGCTCCACCACCGCGATATTGG  >  NC_000913/3555821‑3555918

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.