New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 1842345	23 (0.560)	4 (0.110)	4/312	NT	15.6%	coding (2449/2754 nt)	gacS	Sensor protein GacS
	?	AE015451	= 1842393	22 (0.580)					coding (2401/2754 nt)	gacS	Sensor protein GacS

CACGCCGCAATAGCGTGAGGCACCGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGTTGCCGCTCTGGGTGTTCTCCCACAG  >  AE015451/1842172‑1842591                                                                                                                                                                                                                              |                                                                                                                                                                                                       cACGCCGCAATAGCGTGAGGCACCGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCggcctgcgcctg                                                                                                                                                                                            <  1:618233‑M2/234‑13 (MQ=255)                   ggCACCGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGGTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTc                                                                                                                                                                         >  1:615524/1‑235 (MQ=255)                        cGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCggcctgcgcctggccgctggcaaggcagat                                                                                                                                                                          <  1:763635‑M2/229‑31 (MQ=255)                        cGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCggcct                                                                                                                                                                                                   <  1:86304‑M2/204‑6 (MQ=255)                               aCGTTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGtgtg                                                                                                                                                                                  <  2:634056/214‑1 (MQ=255)                                  gtgtACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGtgtg                                                                                                                                                                                  >  1:590018/1‑211 (MQ=255)                                     tACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCATGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCGCggc                                                                                                                                                                                                     <  1:179774‑M2/189‑4 (MQ=255)                                     tACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCAc                                                                                                                                                             >  1:590667/1‑229 (MQ=255)                                                             gTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGc                                                                                                                              <  1:209276/236‑1 (MQ=255)                                                                  cGGCTGGGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCggcctgcgcctggccgctggcaaggcagatctggccgct                                                                                                                                                                 >  1:41701‑M2/1‑157 (MQ=255)                                                                                 cgcgTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTgg                                                                                                                  <  2:618232/228‑1 (MQ=255)                                                                                              gcgGTCCGTCTCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTg                                                                                                                   <  2:409976/214‑1 (MQ=255)                                                                                              gcgGTCCGGATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGgtg                                                                                                                                                                                    <  2:86304/149‑1 (MQ=255)                                                                                                      tATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCt                                                                                                                                                >  1:727025/1‑177 (MQ=255)                                                                                                                          aTGCTCAGCATGTCAGCGTCCCGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTg                                                                   <  1:156585/234‑1 (MQ=255)                                                                                                                          aTGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGCGTCGAGTACCTTCCGTTCGTCGCCGTTGGTCAGCAGCTCCGCCTGCCCctgctg                                                                                                                                                                                         >  2:52681/1‑116 (MQ=255)                                                                                                                                          cGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTg                                                                                                                   <  2:619532/170‑1 (MQ=255)                                                                                                                                                              gCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAgg                                                                                                             >  2:576440/1‑156 (MQ=255)                                                                                                                                                              gCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAgg                                                                                                             <  1:576441/156‑1 (MQ=255)                                                                                                                                                              cgcagcAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAAcgcgc                                                                              >  2:740074/6‑187 (MQ=255)                                                                                                                                                               cGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCGGCTCggcctgcgcctggccgctggcaaggcagatctggccgctgacatgctgagc                                                                                                                                                     >  2:763634‑M2/1‑64 (MQ=255)                                                                                                                                                                 gCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCtg                                                                                           >  2:506477/1‑171 (MQ=255)                                                                                                                                                                       cgcAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGcaa                                                                                      >  2:481053/1‑170 (MQ=255)                                                                                                                                                                              ccTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCcatggcatgg                                                       >  1:230838/1‑194 (MQ=255)                                                                                                                                                                                   tCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGTTGCCGctc                   >  1:54946/1‑225 (MQ=255)                                                                                                                                                                                         gcgAGTACCTTCAGGTCGTCGCCGTTGGTCAGCAGCTCggcctgcgcctggccgctggcaaggcagatctggccgctgacatgctgagcatgctgctggcctccctggatacggaccgcgaagccatacgcgccgcccgcgcagccgatgaccgaaatggcctga                                                                         >  2:35557‑M2/2‑38 (MQ=255)                                                                                                                                                                                          cGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGGTGCCGCGCTGGGTGTTCTCCCACAg  >  1:111349/1‑235 (MQ=255)                                                                                                                                                                                           gAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGTTGCCGctc                   >  2:367292/1‑217 (MQ=255)                                                                                                                                                                                               aCCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCa                                                                                                               >  2:160587/1‑121 (MQ=255)                                                                                                                                                                                               aCCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGgcggcg                                        >  2:99665/1‑192 (MQ=255)                                                                                                                                                                                                                            cTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGt                           <  2:62859/176‑1 (MQ=255)                                                                                                                                                                                                                              cGGCCTGCGCCTGCTGCGGTGTGCCCAGGAGCCGGCCGGGCCACTTCATCaccacc                                                                                                                                                 >  2:7056/1‑56 (MQ=255)                                                                                                                                                                                                                              |                                                                                                                                                                                                       CACGCCGCAATAGCGTGAGGCACCGTTCAGACGGTGTACCTGCTCGATCAGGCCATTTCGGTCATCGGCTGCGCGGGCGGCGCGTATGGCTTCGCGGTCCGTATCCAGGGAGGCCAGCAGCATGCTCAGCATGTCAGCGGCCAGATCTGCCTTGCCAGCGGCCAGGCGCAGGCCCTCTTCGGGGTCGAGTACCTTCAGTTCGTCGCCGTTGGTCAGCAGCTCGGCCTGCGCCTGCTGCGGTGTGCCCAGGCTCAGGCCGGTCCACTTCATCACCACCTGGGCCAGTTGCCGTTCGCTGATCGGTTTGGTCAGGTAGTCGTCCATGCCGCTGTGCAACAACGCGCGTTTTTCGTTGGCCATGGCATGGGCAGTGAGGGCGACGATCGGCAGCGGGTTGCCGCTCTGGGTGTTCTCCCACAG  >  AE015451/1842172‑1842591

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ 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.