New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	446776 =	28 (0.970)	7 (0.260)	7/266	2.4	21.2%	intergenic (‑110/+39)	yajR/cyoE	putative transporter/protoheme IX farnesyltransferase
	?	NC_000913_3_pae_tpiA	446800 =	26 (0.970)					intergenic (‑134/+15)	yajR/cyoE	putative transporter/protoheme IX farnesyltransferase

TATAATCGTTCATTACCACCTCTGTTTTAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACT  >  NC_000913_3_pae_tpiA/446654‑446947                                                                                                                                                   |                                                                                                                                                    tataATCGTTCATTACCACCTCTGTTTTAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAAt                                                                                                                                                   >  1:17253/1‑149 (MQ=255)       tgttcggcttctctatcatcgccatcactgccctctcggtgatgatgtccgttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtaacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTAATagagag                                                                                                                                             >  1:280541‑M1/117‑149 (MQ=255)       cGTTCATTACCTCCTCTGTTTTAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATagagag                                                                                                                                             <  1:224866/149‑1 (MQ=255)         ttCATTAGCACCTCTGTTTTAAATTCGCGACGAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGt                                                                                                                                           <  2:180122/149‑1 (MQ=255)             ttACCACCTCTGTTTTAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTg                                                                                                                                       >  1:475788/1‑149 (MQ=255)                          cgccatcactgccctctcggtgatgatgtccgttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtaacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACAcagca                                                                                                                          >  1:2076‑M1/98‑149 (MQ=255)                            tAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACAcagcagc                                                                                                                        <  1:325133/149‑1 (MQ=255)                                   tgccctctcggtgatgatgtccgttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtaacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGtttt                                                                                                                                        >  2:430785‑M1/89‑126 (MQ=255)                                   tgccctctcggtgatgatgtccgttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtaacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGtttt                                                                                                                                        <  1:430785‑M1/38‑1 (MQ=255)                                   gcgACTAGTGTTAAGCGGCAAACGAATGGGGGAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACAcagcagccagcagc                                                                                                                 <  2:223370/149‑1 (MQ=255)                                         aGTGTAAAGCGGCAAACGAATGGGGGAAACATGCAGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGc                                                                                                           <  1:26448/149‑1 (MQ=255)                                                      aaaCGAATGGGGTAAACATGCGGATCTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAAGTGCCGTAGCACCTTTTTAATAGAGAGGTTTGATTACCACACAGCCGCCAGCAGCGTATGCGAGTACAGAACCa                                                                                              >  2:88249/1‑149 (MQ=255)                                                         cGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATaa                                                                                           <  2:152902/149‑1 (MQ=255)                                                          ttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtgacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTa                                                                                                                                                     <  2:26023‑M1/25‑1 (MQ=255)                                                          ttgattttatggtaccggactcgcatacgctgctggctgctgtgtggtgacaaaacctctctattAAAAAGGTGCCGTAGCACCTTTTTa                                                                                                                                                     >  1:26023‑M1/66‑90 (MQ=255)                                                           aagggggTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATaaaa                                                                                         <  2:178449/146‑1 (MQ=255)                                                           aaTGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATaaaa                                                                                         <  1:480073/149‑1 (MQ=255)                                                                ggTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACGATAAAATCAAc                                                                                    >  1:193784/1‑149 (MQ=255)                                                                        tGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGAcatca                                                                            <  1:292170/149‑1 (MQ=255)                                                                         gCGGATTTTTTAGTAAATATTTCGACTGGGATATGTTTATAATGTTAAGCAAAAAGGTACCGTAGGACCTTTTTAATAGTAAGGATTTGTTACCAAACAACAACACACAGCCTATGCCAGTAAGATACGATTAAAGAAACGCAaatcac                                                                           >  2:223602/1‑148 (MQ=255)                                                                                    gctgtatatTCCGAGGGGGATATGTTTCGAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGGGGTGTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAGTCAACGGAGATCATCACCGAGAggg                                                                <  2:25976/144‑1 (MQ=255)                                                                                       aaaTATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAg                                                             <  1:51059/149‑1 (MQ=255)                                                                                            tttCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATg                                                        >  2:305417/1‑149 (MQ=255)                                                                                               tgctgtgtggtaacaaaacctctctattaaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCg                                                     >  1:2076‑M2/53‑149 (MQ=255)                                                                                                    gggATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCgatgat                                                <  1:128635/149‑1 (MQ=255)                                                                                                        tatGTTTCTAATGCTAAGAAAAAAGGTGTCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAGTCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATagag                                            <  2:318315/149‑1 (MQ=255)                                                                                                            tttCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCACCCAGCAGCGTATGCGAGTCCGGTACCATAAACTCAACGGACATCACCACAGAGATGGCAATGATGGCGATGGTagagcaac                                        >  2:78798/1‑145 (MQ=255)                                                                                                             aaaacctctctattaaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCa                                                              >  2:430785‑M2/39‑126 (MQ=255)                                                                                                             aaaacctctctattaaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCa                                                              <  1:430785‑M2/88‑1 (MQ=255)                                                                                                               cTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGaa                                          >  2:201639/1‑144 (MQ=255)                                                                                                               cTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGaa                                          <  1:201639/144‑1 (MQ=255)                                                                                                                  ctctctattaaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACa                                  >  1:280541‑M2/34‑149 (MQ=255)                                                                                                                     gtAAGGAAAAAGGTGGCGTAGCACGTTTTTAATAGAGAGGTTTTGTTACCACACAGCGGCCAGCAGCGTATGCGAGGCCGGTACCATAAAATCAACGGAGATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCt                               <  2:323349/148‑1 (MQ=255)                                                                                                                       aaGAAAAAAGGTGCCGTAGCACCTTTATACGCGAAAAGATTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCGCCGGAAGGGCAGTGATGGAGATAGTAGAGAGGCCaaaagactgg                             >  2:487899/1‑142 (MQ=255)                                                                                                                         gAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGAGATGGCGATGATAGAGAAGCCGAACAGcataga                           >  2:133792/1‑144 (MQ=255)                                                                                                                          taaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTCACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCaa                                                                                     <  2:26023‑M2/65‑1 (MQ=255)                                                                                                                          taaaaaggtgctacggcacctttttAATAGAGAGGTTTTGTCACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCaa                                                                                     >  1:26023‑M2/26‑90 (MQ=255)                                                                                                                            aaaaggggctacggcacctttttAATGGAGAGGGTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTgcgcgc                        >  1:485324‑M2/24‑149 (MQ=255)                                                                                                                                 GTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGa                   <  1:402442‑M1/149‑1 (MQ=255)                                                                                                                                       tAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGt             <  2:402442/149‑1 (MQ=255)                                                                                                                                                  tAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACt  <  2:2076‑M2/148‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                    TATAATCGTTCATTACCACCTCTGTTTTAAATTCGCGACTAGTGTAAAGCGGCAAACGAATGGGGTAAACATGCGGATTTTTTAGTAAATATTTCGAGAGGGATATGTTTCTAATGCTAAGAAAAAAGGTGCCGTAGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACT  >  NC_000913_3_pae_tpiA/446654‑446947

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.