New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	1811415 =	18 (0.700)	3 (0.140)	3/272	NT	18.0%	intergenic (+22/+106)	ispD/PP_1615	2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase/Transcriptional regulator, LysR family
	?	AE015451	1811495 =	12 (0.540)					intergenic (+102/+26)	ispD/PP_1615	2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase/Transcriptional regulator, LysR family

ATGTTCCGCCTTGGAGCGTTGCATCGGGCGCTGGCTGAGTGCCTGGTGTCGGATGTGGTGGTGACCGACGAAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAACCCCGCCAACCCCTCCTTCAGGTAATCCACCAGCCGCCGTACCTTCGGCGACAGGTGCCTCTGCTGCGGATACAGCGCCCATACCGCCGTATTCGGCGGTT  >  AE015451/1811199‑1811645                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       aTGTTCCGCCTTGGAGCGTTGCATCGGGCGCTGGCTGAGTGCCTGGTGTCGGATGTGGTGGTGACCGACGAAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTc                                                                                                                                                                                                                      >  2:274544/1‑235 (MQ=255)              gAGCGTTGCATCGGGCGCTGGCTGAGTGCCTGGTGTCGGATGTGGTGGTGACCGACGAAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGc                                                                                                                                                                                                        <  1:193227/236‑1 (MQ=255)                                                 gcGGATGTGGTGGTGACCGACGAAGCGGCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAAc                                                                                                                                                                                                                            <  2:22305/180‑1 (MQ=255)                                                        tggtggtgACCGACGAAGCACCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACcgt                                                                                                                                                                                 <  1:77197/217‑1 (MQ=255)                                                          gtggtgACCGACGAAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTac                                                                                                                                                                                                                              >  2:260358/1‑169 (MQ=255)                                                                     cgaAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAAcc                                                                                                                                                                                                                           <  2:178759/162‑1 (MQ=255)                                                                                 cATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTcg                                                                                                                                                                                                                                     >  1:349910/1‑140 (MQ=255)                                                                                   tCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTcgc                                                                                                                                                                                                                                    <  2:207391/139‑1 (MQ=255)                                                                                          gTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGAtt                                                                                                                                                                                                          <  1:362145/158‑1 (MQ=255)                                                                                                tCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACGCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCCGCCGaa                                                                                                                      >  1:236436/1‑236 (MQ=255)                                                                                                                   gAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACaa                                                                                                                                                                                                                >  1:365592/1‑127 (MQ=255)                                                                                                                            aGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACcgtcgt                                                                                                                                                                              >  1:3428/1‑152 (MQ=255)                                                                                                                             gTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                                                    >  1:458123/1‑177 (MQ=255)                                                                                                                                           gTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGaca                                                                                                                                                                                         >  2:211102/1‑126 (MQ=255)                                                                                                                                           gTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGaca                                                                                                                                                                                         <  1:211106/126‑1 (MQ=255)                                                                                                                                                 cGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACcagca                                                                                                                                         >  2:483275/1‑168 (MQ=255)                                                                                                                                                     ccGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCCGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTa                                                                                                                                                                             <  2:289511/128‑1 (MQ=255)                                                                                                                                                         aggggttggcggggttgccggagtatcgtttcggctgacgggatgtgctgctggtactggcctcTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTa                                                                                                                                                                             <  2:449610‑M1/60‑1 (MQ=255)                                                                                                                                                         aggggttggcggggttgccggagtatcgtttcggctgacgggatgtgctgctggtactggcctcTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTa                                                                                                                                                                             >  1:449614‑M1/65‑124 (MQ=255)                                                                                                                                                              ttggcggggttgccggagtatcgtttcggctgacgggatgtgctgctggtactggcctcTTCGCGGGTaa                                                                                                                                                                                                                              <  2:119575‑M1/11‑1 (MQ=255)                                                                                                                                                              ttggcggggttgccggagtatcgtttcggctgacgggatgtgctgctggtactggcctcTTCGCGGGTaa                                                                                                                                                                                                                              >  1:119579‑M1/60‑70 (MQ=255)                                                                                                                                                                  cggggttgccggagtatcgtttcggctgacgggatgtgctgctggtactggcctcTTCGCgg                                                                                                                                                                                                                                  <  2:49567‑M1/7‑1 (MQ=255)                                                                                                                                                                   tGGTTGCGCCAGCGCCGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCGTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTCGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGACACGATACTCCGGCAACCCCGCCAACCCCTCCTTCAGGTAATccac                                                                         <  1:162627/214‑1 (MQ=255)                                                                                                                                                                        gcgcCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGa                                                                                                                                                          >  2:164232/1‑128 (MQ=255)                                                                                                                                                                                                               tactggcctcTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGATGGACACAGACCGTCGTAGGAGCGGGTTTAccc                                                                                                                                                              <  1:54844‑M1/75‑1 (MQ=255)                                                                                                                                                                                                               ggCTGGCCTTTTCGCGGGTAACCCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAACCCCGCCaa                                                                                              <  1:94640/149‑1 (MQ=255)                                                                                                                                                                                                                    gcctcTTCGCGGGTAAACCCGCTCCTACa                                                                                                                                                                                                                 >  2:84735‑M1/6‑29 (MQ=255)                                                                                                                                                                                                                    gCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAACCCCGCCAACCCCTCCTTCAGGTAATCCACCAGCCGCCGTACCTTCGGCGACAGGTGCCTCTGCTGCGGATACAGCGCCCATACCGCCGTATTCGGCGGtt  <  1:274548/236‑1 (MQ=255)                                                                                                                                                                                                                      ctcTTCGCGGGTAAACCCGCTCCTAc                                                                                                                                                                                                                  >  2:52057‑M1/4‑26 (MQ=255)                                                                                                                                                                                                                       ttttCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAACCCCGCCAACCCCTCCtt                                                                                     >  2:316143/1‑150 (MQ=255)                                                                                                                                                                                                                       ttttCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAAACCCGCCAACCCCTCCTTCAGGTAATCCACCAGCCGCCGTAcc                                                            >  1:91327/1‑175 (MQ=255)                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       ATGTTCCGCCTTGGAGCGTTGCATCGGGCGCTGGCTGAGTGCCTGGTGTCGGATGTGGTGGTGACCGACGAAGCCTCGGCCATCGAATGGTCCGGTCAGGCGCCGCGGCTGGTGGAAGGGCGCAGTGACAACATAAAGGTGACCCGGCCCGAAGATCTCGAATGGTTGCGCCAGCGCTGGGCGGGTAAACGCTGAGCGTTCTCCTGGGCTGGCCTTTTCGCGGGTAAACCCGCTCCTACAATGGATTGCATCGGTGGTTGGACACAGACCGTCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACCAGCAGCACATCCCGTCAGCCGAAACGATACTCCGGCAACCCCGCCAACCCCTCCTTCAGGTAATCCACCAGCCGCCGTACCTTCGGCGACAGGTGCCTCTGCTGCGGATACAGCGCCCATACCGCCGTATTCGGCGGTT  >  AE015451/1811199‑1811645

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 35 ≤ 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.