New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 1285189	30 (0.920)	5 (0.160)	5/266	3.6	14.9%	noncoding (1285189/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 1285193	29 (0.950)					noncoding (1285193/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTC  >  NC_000913_3_vch_tpiA/1285051‑1285336                                                                                                                                               |                                                                                                                                                gCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTTCAGCGGCTCCTTGAATATCCGGATGCTGCCTTATGgccac                                                                                                                                           >  1:157633/1‑146 (MQ=255)        cGGTTAAGATACCAAATGCAAGCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCGCTAAGTAGCCGGATGCTGCCATAAGGCAGCATccgga                                                                                                                                    <  2:408654/149‑5 (MQ=255)          gTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAag                                                                                                                                  <  2:513140/149‑1 (MQ=255)           ttCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAaga                                                                                                                                 >  2:240166/1‑149 (MQ=255)             catcaaCCAAATTCAATCTGTTCAACCGCCGTCGTATCGATGCCACCGATCTGACAAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAgaga                                                                                                                               <  2:56458/144‑1 (MQ=255)                  aCCAAATTCAATCTTTGTCACAGCCGGCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGttt                                                                                                                          <  2:215939/149‑1 (MQ=255)                    cAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCCGCCTTATTGCAGCATCAACAAGAGATGTTTGa                                                                                                                        <  1:562525/149‑1 (MQ=255)                         tCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCGTCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGa                                                                                                                   <  2:1493/149‑1 (MQ=255)                            aTCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTg                                                                                                                >  2:324653/1‑149 (MQ=255)                             tCTGTTCAACAGCCGTCGTATCGATGACCTCGATGTGGCCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAAGAATGTTTGAGGCGAttcc                                                                                                               >  1:257176/1‑147 (MQ=255)                               tGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCcg                                                                                                             <  1:297662/149‑1 (MQ=255)                                   cAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGGTTGCCGCGTc                                                                                                         >  1:12394/1‑149 (MQ=255)                                              gtATCGGTGCCAGCGATGTGACCAGCAAAACGGAGCCGCATCGATGATCGAACTCGTGAATGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGc                                                                                              <  2:135691/149‑1 (MQ=255)                                              gtATCGATGGCATCGATGTGACCAGGAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCCCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGc                                                                                              <  2:351776/149‑1 (MQ=255)                                                 tCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCATTGAATATCCGGATGTTGCCTTATGGCAGCATCAACAAGAGTTGTTTGAGGCGGTTGCCGCGTCGTAAAATCTGACaa                                                                                           >  1:145461/1‑149 (MQ=255)                                                     tGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAaga                                                                                       <  1:192003/149‑1 (MQ=255)                                                         aTCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTGGAATATCCGGATGCTGCCTTATGGCAGCCTCAACAAGAGATGTTTGAAGAGATTGCCGCCTCGGAAAATCTGCCAACAGAGGaa                                                                                   >  2:472860/1‑148 (MQ=255)                                                                      gCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTgg                                                                      <  1:279411/149‑1 (MQ=255)                                                                      gCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTgg                                                                      <  1:323428/149‑1 (MQ=255)                                                                      acAAAACTGAGCCGCATACATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATAGCAACATCAACATGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTgg                                                                      <  2:213877/148‑1 (MQ=255)                                                                                  cGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTgc                                                          <  1:192220/149‑1 (MQ=255)                                                                                     aTCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGcgcg                                                       >  2:43931/1‑149 (MQ=255)                                                                                        cATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTgcgc                                                        >  2:279522/1‑145 (MQ=255)                                                                                        cATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTgcgc                                                        <  1:279522/145‑1 (MQ=255)                                                                                            aTCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAac                                                >  2:399013/1‑149 (MQ=255)                                                                                                    cGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGAggg                                        >  2:564460/1‑149 (MQ=255)                                                                                                       gATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATc                                     >  1:206981/1‑149 (MQ=255)                                                                                                                            atatCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGt                <  2:389459/149‑1 (MQ=255)                                                                                                                              atCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGTAc              >  1:183199/1‑149 (MQ=255)                                                                                                                                 ttgATGCTGCCATAAGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGc           >  2:370348/3‑149 (MQ=255)                                                                                                                                          ccTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTc  <  1:240166/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                GCTGCCACGGTTCAGATACCAAATTCAATCTGTTCAACAGCCGTCGTATCGATGCCATCGATGTGACCAGCAAAACGGAGCCGCATCCATGATCGAACTCGTGATTGTATCGCGTCTCCTTGAATATCCGGATGCTGCCTTATGGCAGCATCAACAAGAGATGTTTGAGGCGATTGCCGCGTCGAAAAATCTGCCAAAAGAGGATGCCCATGCGCTGGGCATTTTCCTGCGCGATTTAACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTC  >  NC_000913_3_vch_tpiA/1285051‑1285336

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.