New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 4171833	34 (1.160)	7 (0.240)	5/282	3.3	16.0%	noncoding (4171833/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 4213192	40 (1.380)					noncoding (4213192/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATAAACTGCCAGGCATCAAA  >  NC_000913_3_vch_tpiA/4171685‑4171958                                                                                                                                                     |                                                                                                                              cgGTGGGACCACCTGACCCCATGACGAACGCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTGCGTTTTAt                                                                                                                               <  2:386958/149‑1 (MQ=11)   gtggtCCCCCCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCt                                                                                                                             >  2:318901/1‑149 (MQ=25)      gtCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCGGTCGAACGACTGGGCCATTCGTTTTATCtgtt                                                                                                                          >  2:338481/1‑149 (MQ=255)      gtCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCtgtt                                                                                                                          >  2:194778/1‑149 (MQ=34)       tCCCACCTGACCCGATGCCGAACTCAGAAGTGAAGCACCGTAGCGCCGATGGTAGTGTGGGGTCTGCCCATGCGAGGGTAGGGAACTGCCAGGCATAAAATAAAACGAAATGACCACTGGAAAAACTGGGGCTACCGTTTTATGtgttg                                                                                                                         >  2:119105/1‑149 (MQ=11)                   ccATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGaa                                                                                                             >  1:232298/1‑149 (MQ=35)                    cATGCCGAACTCAGAAGTGAACCGGCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAAc                                                                                                            <  1:82747/149‑1 (MQ=25)                    cATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAAc                                                                                                            <  1:176640/149‑1 (MQ=34)                       gCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATACGAGAGAAGGGGACGGCGAGGCATGAAATAAAACGAAAGGCTCAGTCAAACGACTGGGCCTTTCTATTTATCTGTTGTTTGTCGATCAACGct                                                                                                         >  2:29124/1‑149 (MQ=11)                         cGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGctct                                                                                                       >  2:282980/1‑149 (MQ=35)                          gAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCtctc                                                                                                      <  1:318901/149‑1 (MQ=35)                                    gTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTATATCTGTTGTTTGTCGGTGAACGCTCTCCCGAGCAggc                                                                                            >  1:194583/1‑148 (MQ=255)                                      gAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGTGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCTGTGAACGCTCTCCTGAGTAGGAcg                                                                                          >  2:230847/1‑148 (MQ=21)                                                                     tctcCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGa                                                           >  1:510470/1‑149 (MQ=35)                                                                      ctcCCCATGCAAGAGTAGGGAACCGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGCCTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGaa                                                          <  1:232630/149‑1 (MQ=255)                                                                      caccacctGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGaa                                                          <  1:269682/142‑1 (MQ=17)                                                                          ccAAGCGAGAGTAGGGAACTGCCAGGCAGTAACTACAATGAAAGCCTCACTCGAGAAACTGTGCCTTTCGTTTTATCTGTTGTTCGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCaa                                                      <  1:119105/149‑1 (MQ=11)                                                                           cATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAAc                                                     >  2:396303/1‑149 (MQ=32)                                                                            aTGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACg                                                    >  2:91948/1‑149 (MQ=32)                                                                            aTGCGAAAGGAGGGGACTGCCAGGAAGCAAATAAAACGGAAGGCTAAGTAGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCATGCCTGAGTAGGACAAAACCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACg                                                    <  1:230847/149‑1 (MQ=11)                                                                              gCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGc                                                  >  1:362129/1‑149 (MQ=32)                                                                                    gTAGGGAACTGCCAGACATCAAGTAACACGCACGGCTCAGTCGAATGTCTGGGCCTTTCGGTTTATCCGTTGTTTGTCGGTGAACGTTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAg                                            <  1:171747/149‑1 (MQ=11)                                                                                             tGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCggg                                   >  1:111813/1‑149 (MQ=32)                                                                                                 aGGCATCAAATAAAACGAAAGGCTCAGTCGAAATACTAGGCCTTTAGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAgg                               >  1:459341/1‑149 (MQ=12)                                                                                                          aTAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGAcgcccgcc                      <  2:420006/149‑1 (MQ=32)                                                                                                           gaaagCGTAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGGGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCa                     <  1:373627/148‑1 (MQ=12)                                                                                                             aaaCGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTGTTATCTGTTGTTTGTAGGAGCACGCTCTCCTCAGCAGAACAAATACGCCACAGGCGCATTTGAACGCTACCAAGCAACAGCCAGGCGGGAGACGGGCAAGAGCACCGCCaag                   >  2:343017/1‑147 (MQ=255)                                                                                                               aCGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATaaa                 >  2:95232/1‑149 (MQ=32)                                                                                                               aCGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCACCGGGAGCGGATTTGAACGTTGCGAAGCAACGGGCCGGGGGGGGGCGGGTAGGACGCCCGCCATaaa                 >  1:439985/1‑149 (MQ=11)                                                                                                                cGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGGGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCGGGACGCGCGCCATAAAc                >  1:39651/1‑149 (MQ=12)                                                                                                                     ggCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATAAACTGCCa           >  2:393217/1‑149 (MQ=32)                                                                                                                     ggCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCCCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATAAACTGCCa           <  1:172233/149‑1 (MQ=17)                                                                                                                              gAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCACGGAGGGGTGCGGGCAGAAGGCCCGCCATAAACTGCCAGGCATCaaa  >  2:160711/1‑149 (MQ=11)                                                                                                                               aaaGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAg                                <  2:305255/118‑1 (MQ=11)                                                                                                                               aaaGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAg                                >  1:305255/1‑118 (MQ=11)                                                                                                                                                     |                                                                                                                              CGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATAAAACGAAAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATAAACTGCCAGGCATCAAA  >  NC_000913_3_vch_tpiA/4171685‑4171958

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.