New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	103908 =	18 (0.720)	4 (0.170)	4/274	2.9	19.9%	noncoding (103908/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	103936 =	15 (0.630)					noncoding (103936/4641682 nt)	repeat_region	repeat region
Rejected: Frequency below/above cutoff threshold.

GCCGGGGCGATACGATGAAACGTTTGGCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCGACGGTATGGTCA  >  NC_000913_3_vch_tpiA/103789‑104081                                                                                                                                                    |                                                                                                                                                  ctacttatgcgtcaaccttcacggtaccaatctccagtcctactaccaggtttctgtccgtcgccttgatcattgttgttctgcctgtgcctgattttgttgctgagtagattcctctgGCGGCAGTAGGCTGGGCGCCCTTGCCGCCa                                                                                                                                                  >  1:69648‑M1/120‑149 (MQ=255)   actaaagcggcaaccttcgcggtaccaatctccagtcctactaccagttttctgtccgtcgccttgatcattgttgttctgcctgtgcctgattttgttgctgagtagattcctctgGCGGCAGTAGGCTGGGCGCCCTTGCCGCCaga                                                                                                                                                >  1:15501‑M1/118‑149 (MQ=255)         gATACGATGAAACGTTTGGCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGCTGGCACACGGATTAGCTACGTTGATTTGCGTTATGACTCAGGAGCAGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGaaac                                                                                                                                          >  1:170780/1‑147 (MQ=255)           tACGATGAAACGTTTGGCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTACGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAAACTa                                                                                                                                        >  1:321418/1‑149 (MQ=255)               aTGAAACGTTTGGCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCa                                                                                                                                    <  1:13761/149‑1 (MQ=255)                          ggCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATc                                                                                                                         <  2:35864/149‑1 (MQ=255)                             tCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATcagg                                                                                                                      >  1:347045/1‑149 (MQ=255)                                              aTCCGGTTTTACAGCAGCAGGTGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAAcaacaa                                                                                                     <  1:167410/149‑1 (MQ=255)                                                      ttACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCTAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAg                                                                                             >  2:332393/1‑149 (MQ=255)                                                                 cttgatcattgttgttctgcctgtgcctgattttgttgctgagtagattcctctgGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAAt                                                                                                                                           >  2:321467‑M1/56‑92 (MQ=255)                                                                 cttgatcattgttgttctgcctgtgcctgattttgttgctgagtagattcctctgGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAAt                                                                                                                                           <  1:321467‑M1/37‑1 (MQ=255)                                                                  gcgcAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGAAATCTACTCAGCAACAAAATCATGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGa                                                                                 >  2:42759/1‑149 (MQ=255)                                                                          cGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCTGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGgt                                                                         <  1:47169/149‑1 (MQ=255)                                                                                               cGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTAc                                                    >  2:21477/1‑149 (MQ=255)                                                                                                               attcctctggcggcaagggcgcccagcctactgccgcCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAg                                                                                             <  1:321467‑M2/55‑1 (MQ=255)                                                                                                               attcctctggcggcaagggcgcccagcctactgccgcCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAg                                                                                             >  2:321467‑M2/38‑92 (MQ=255)                                                                                                                    tctggcggcaagggcgcccagcctactgccgcCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTtagt                               >  1:15501‑M2/33‑149 (MQ=255)                                                                                                                      tggcggcaagggcgcccagcctactgccgcCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAACCTGGTAGTAGGACTGGAGATTGGTACCGTGAAGGTTGACGCATaagtag                             >  1:69648‑M2/31‑149 (MQ=255)                                                                                                                       aGCGGCAGTAGGCTGGGCGCCTTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAgg                            <  1:219242/149‑1 (MQ=255)                                                                                                                           GCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGAAGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGaa                        <  2:293983‑M1/149‑1 (MQ=255)                                                                                                                              gTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGAAGGACTGGAGATTGGTACCGAGAAGGATGCCGCTTTAGTAGGGGAAGtt                     >  1:150998/1‑149 (MQ=255)                                                                                                                                 ggCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGACAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCCCCTTAGCTGGGAACGTTCTg                  >  2:178533/1‑149 (MQ=255)                                                                                                                                     gggCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCg              >  1:174930/1‑149 (MQ=255)                                                                                                                                        cgcCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCGACg           >  2:392413/1‑149 (MQ=255)                                                                                                                                                 cgcCAGAGGCATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCCAGACGACGACCAGAAAACTGGTAGCAGGACTGCAGATTGGTACCGCGAAGGTTGCCGCTTGAGTAGGGGAACTTCTGCCCGACGctatgctgc  >  2:218726‑M2/4‑145 (MQ=255)                                                                                                                                                    cAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCGACGGTATg      <  1:294303/142‑1 (MQ=255)                                                                                                                                                    cAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCGACGGTATg      >  2:294303/1‑142 (MQ=255)                                                                                                                                                    |                                                                                                                                                  GCCGGGGCGATACGATGAAACGTTTGGCTCGCTTTGTAGAACTTTATCCGGTTTTACAGCAGCAGGCGCAAACCGATGGCAAACGGATTAGCTACGTTGATTTGCGTTATGACTCTGGAGCGGCAGTAGGCTGGGCGCCCTTGCCGCCAGAGGAATCTACTCAGCAACAAAATCAGGCACAGGCAGAACAACAATGATCAAGGCGACGGACAGAAAACTGGTAGTAGGACTGGAGATTGGTACCGCGAAGGTTGCCGCTTTAGTAGGGGAAGTTCTGCCCGACGGTATGGTCA  >  NC_000913_3_vch_tpiA/103789‑104081

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