New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 2472115	19 (0.740)	5 (0.200)	5/304	NT	23.7%	intergenic (+19/+130)	PP_2166/PP_2167	Anti‑anti‑sigma factor/putative PhoD‑like phosphatase
	?	AE015451	2472313 =	14 (0.570)					coding (1783/1851 nt)	PP_2167	putative PhoD‑like phosphatase

GGTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGTTTTTAAACTCTGTAGCCTCACCCCCGCCAGCATCCAGCTGGTACACCCGCGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCC  >  AE015451/2471885‑2472345                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                       ggTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCACATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCctc                                                                                                                                                                                                                                      <  1:403818/233‑1 (MQ=255)           gTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTaaa                                                                                                                                                                                                                          <  1:279034/235‑1 (MQ=255)                                          gtcgATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccg                                                                                                                                                                                                     <  1:21412‑M1/225‑36 (MQ=255)                                           tcgatcgaCCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCaaa                                                                                                                                                                                              <  1:348506/231‑1 (MQ=255)                                           tcgatcgaCCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACAcc                                                                                                                                                                                          >  1:128188/1‑235 (MQ=255)                                              atcgaCCGATACCCTGCACCGATTGGCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAGTGCGCTGGAGCGGGGCTGATCTATAGCCTGTGCCGGCCTCTTCCCTGGTAAACCCg                                                                                                                                                                                                                      >  2:286566/1‑204 (MQ=255)                                                                                                       aaGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAgg                                                                                                                                                            <  1:398537/205‑1 (MQ=255)                                                                                                            gtggtgCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTCCGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAg                                                                                                                                                             <  1:351185/199‑1 (MQ=255)                                                                                                                tgCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGTAGCTGATCTATAGCCTGTGCCGGCCgcccctggtcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggcct                                                                                                                                                                         >  1:96558‑M1/1‑120 (MQ=255)                                                                                                                  cgcTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGAACTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCct                                                                                                                                                                                                                                       >  1:27105/1‑119 (MQ=255)                                                                                                                     tCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcg                                                                                                                                                          <  1:455886‑M1/193‑79 (MQ=255)                                                                                                                     tCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcg                                                                                                                                                          >  2:455882‑M1/1‑115 (MQ=255)                                                                                                                     tCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGACTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCGGATCTATAGCCTGTGCCGGCCTCGTCGCGGGTa                                                                                                                                                                                                                            >  2:123607/1‑127 (MQ=255)                                                                                                                               tGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCAc                                                                                                                                                                             <  2:510276/164‑1 (MQ=255)                                                                                                                                                     gggCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCa                                                                                                                                                                        >  2:163911/1‑147 (MQ=255)                                                                                                                                                     gggCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCa                                                                                                                                                                        <  1:163915/147‑1 (MQ=255)                                                                                                                                                                 cTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcgtacgcggcaccacctccatttctcggcgcttggtaaaccagttgagcggcgagcgcggtgcatacaaccagcggttgagccggtcga                                                                   <  1:474850‑M1/236‑166 (MQ=255)                                                                                                                                                                      cccGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGGGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGGAAACCCGCTCCTACGACGGCCTGCGCCCAAACAcc                                                                                                                                                                                          <  2:503786/111‑1 (MQ=255)                                                                                                                                                                         gcgAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTCTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGTTTTTAAActct                                                                                 >  1:308118/1‑214 (MQ=255)                                                                                                                                                                           gAAGCCTTCCATGACCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGTTTTTAAACTCTGTAGCCTCACCCCCGCCAGCa                                                            <  1:427787/233‑1 (MQ=255)                                                                                                                                                                                    cATGCTCTGGTCAATGCGGTGAAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTcgcg                                                                                                                                                                                                                                <  2:71074/60‑1 (MQ=37)                                                                                                                                                                                            ggTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGTTTTTAAACTCTGTAGCCTCACCCCCGcc                                                                >  1:390069/1‑212 (MQ=255)                                                                                                                                                                                                                  tGAGCTATAGCCTGCGCCGTCCTCTTAGCGGGTAACCCCGCTCCTACGGCGGCATGCGCCCAAACACCAATGTGTCTCCACCCCCa                                                                                                                                                                        <  2:97411/86‑1 (MQ=25)                                                                                                                                                                                                                      cTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCACACACCAATGTGTGTCCACCCCCAATCACGTGTAGGAGCGGGTTGCCCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGttttt                                                                                        <  1:404570/162‑1 (MQ=255)                                                                                                                                                                                                                         taGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACCACGCCCGGcttt                                                                                         >  2:491742/1‑158 (MQ=255)                                                                                                                                                                                                                            ccTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGc                                                                                                                                                         >  1:301907/1‑91 (MQ=255)                                                                                                                                                                                                                              tgtgCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcgtacgcggcaccacctccatttctcggcgcttggtaaaccagttgagcggcgagcgcggtgcatacaaccagcggttgagccggtcgagcacatccagcaagcgccggggga                                           >  1:276666‑M1/1‑10 (MQ=255)                                                                                                                                                                                                                                   cggccgcccctgttcatcaaaaaacacctgtcccagcccgg                                                                                                                                                                                                    >  1:50590‑M1/1‑5 (MQ=255)                                                                                                                                                                                                                                   cggccgcccctgttcatcaaaaaacacctgtcccagcccgg                                                                                                                                                                                                    <  2:50587‑M1/41‑37 (MQ=255)                                                                                                                                                                                                                                   cGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGGAGGAGCGGGTTTACCCGCGAAGAGGCCg                                                                                                                                   >  2:404566/1‑106 (MQ=255)                                                                                                                                                                                                                                     gccgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcgtacgcggcaccacctccatttctcggcgcttggtaaaccagttgagcggcgagcgcggtgcatacaaccagcggttgagccggtcgagcacatccagcaagcgccgggggaactcgttcttgattccgctgctggtcacctgccacaagtgc  >  2:276854‑M1/1‑3 (MQ=255)                                                                                                                                                                                                                                      ccTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCgg                                                                                             <  1:453236/141‑1 (MQ=255)                                                                                                                                                                                                                                      ccTCTGCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAACCACCAATGTCTGTCCCCCCCCGATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAACAACTCTGAATCTCACTCCGCCCGGTTTTTAAACTCTGTAGCCGCACCCCCGCCAGCATCCGGc                                                      <  1:440440/180‑1 (MQ=25)                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                       GGTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACTACGCCCGGTTTTTAAACTCTGTAGCCTCACCCCCGCCAGCATCCAGCTGGTACACCCGCGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCC  >  AE015451/2471885‑2472345

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ 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.