genome.fa.s9634.2.7.7.80.10.50.1000.50.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  50  of  78  ( 9351 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9885934--9886034	22	4.3	22	69	12	67	20	22	23	32	1.98
9885979--9886051	24	3.0	24	82	8	85	24	23	24	27	2.00
9895509--9895806	70	4.1	69	73	10	233	52	5	3	38	1.42
9895529--9895806	71	3.8	71	73	12	219	52	6	3	37	1.42
9895509--9895787	144	2.0	141	81	9	325	52	5	3	38	1.41
9895766--9895808	20	2.2	20	86	0	59	53	6	2	37	1.41
9896674--9897034	173	2.0	174	93	4	607	30	11	11	45	1.76
9897133--9897183	19	2.6	20	90	3	77	43	23	17	15	1.88
9897133--9897450	20	15.6	20	76	7	165	39	18	22	19	1.93
9897258--9897448	40	4.7	40	81	3	220	36	16	24	21	1.94
9897237--9897395	83	1.9	83	90	0	255	36	17	24	21	1.95
9897437--9897480	20	2.2	20	87	0	61	54	13	18	13	1.71
9897557--9897642	6	14.7	6	98	1	158	31	51	17	0	1.46
9897913--9898027	20	5.8	20	92	0	185	25	24	16	33	1.96
9898037--9898091	22	2.5	22	97	2	103	20	23	32	23	1.98
9898084--9898137	20	2.7	20	94	0	90	11	18	18	51	1.74
9898124--9898174	19	2.6	20	81	12	70	13	15	25	45	1.83
9905357--9905405	21	2.4	20	86	6	71	10	6	34	48	1.62
9905959--9905993	18	1.9	18	88	11	54	45	2	2	48	1.32
9907070--9907114	18	2.5	18	100	0	90	6	15	15	62	1.52
9907322--9907365	22	2.0	21	82	4	52	47	6	4	40	1.50
9909038--9909087	13	3.5	14	76	20	50	42	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9909445--9909572	60	2.1	60	81	2	150	36	17	16	28	1.92
9914383--9914455	24	3.1	24	80	9	71	36	4	23	35	1.74
9914397--9914432	12	3.0	12	91	0	63	33	5	25	36	1.79
9914397--9914465	24	2.8	26	83	12	85	37	5	24	31	1.79
9914577--9914609	15	2.2	15	94	0	57	15	21	33	30	1.94
9921202--9921237	12	3.0	12	87	0	54	30	8	25	36	1.85
9921382--9921414	15	2.2	15	100	0	66	15	18	33	33	1.92
9929000--9929556	56	9.9	56	90	0	871	24	21	17	35	1.95
9929881--9929928	22	2.3	22	85	7	64	29	27	14	29	1.95
9929901--9930099	94	2.1	95	85	4	269	25	25	15	33	1.95
9934652--9935099	56	8.0	56	91	0	664	26	20	17	35	1.95
9946978--9947164	56	3.3	56	84	3	259	24	20	17	37	1.94
9947576--9947633	22	2.8	20	82	10	71	27	29	15	27	1.96
9947501--9947707	94	2.2	95	86	4	276	26	25	15	32	1.96
9952222--9952268	21	2.2	22	84	3	60	70	10	2	17	1.26
9964688--9964834	59	2.5	59	86	1	197	36	19	11	32	1.88
9969337--9969392	2	28.0	2	100	0	112	50	0	0	50	1.00
9969426--9969662	78	3.0	80	85	4	302	27	24	13	35	1.93
9969594--9969784	68	2.8	68	85	1	258	29	24	13	32	1.93
9970173--9970362	95	2.0	96	84	5	251	26	23	17	32	1.96
9970323--9970399	21	3.7	21	79	10	95	23	27	14	35	1.93
9970348--9970401	20	2.6	21	74	11	58	27	25	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9973610--9973649	17	2.3	18	86	4	55	70	2	20	7	1.24
9978349--9978400	18	2.9	18	91	0	86	28	32	21	17	1.96
9979597--9979638	20	2.0	22	86	9	61	35	21	0	42	1.53
9981348--9981398	20	2.5	20	93	0	84	27	9	33	29	1.89
9981471--9981522	22	2.5	21	75	15	54	32	13	30	23	1.93
9983601--9983654	22	2.5	22	82	5	67	35	16	24	24	1.95
9984116--9984286	81	2.1	81	87	0	243	36	9	21	32	1.86
9984818--9984874	29	2.0	29	82	6	71	45	3	14	36	1.61
9989230--9989400	81	2.1	81	88	0	252	35	9	23	31	1.87
9989230--9989424	81	2.4	82	83	5	218	34	9	23	32	1.86
9996183--9996273	23	3.9	24	82	4	114	26	19	24	29	1.98
9996183--9996273	47	1.9	47	86	8	132	26	19	24	29	1.98
10008592--10008621	2	15.0	2	100	0	60	50	0	0	50	1.00
10008707--10008749	5	8.2	5	82	7	50	72	6	0	20	1.08
10008702--10008749	21	2.2	20	79	13	51	70	8	0	20	1.12
10012539--10012565	14	1.9	14	100	0	54	55	14	7	22	1.64
10013005--10013037	16	2.1	16	94	0	57	51	27	0	21	1.48
10014965--10015015	21	2.4	21	80	3	57	21	19	37	21	1.95
10018827--10018866	21	1.9	21	89	0	62	30	7	7	55	1.56
10021045--10021074	15	2.0	15	100	0	60	53	13	6	26	1.64
10021176--10021253	23	3.4	23	74	13	79	20	11	17	50	1.77
10021644--10021728	23	3.7	23	78	6	82	23	12	17	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10021909--10022065	38	4.1	38	86	0	161	43	13	17	25	1.86
10023001--10023046	18	2.6	18	89	3	67	26	0	21	52	1.47
10023633--10023664	13	2.5	13	94	0	55	65	0	0	34	0.93
10024563--10024607	23	2.0	23	82	8	56	24	13	2	60	1.45
10028194--10028231	17	2.4	17	86	8	53	65	15	0	18	1.27
10033665--10033703	15	2.6	15	88	8	53	17	7	0	74	1.05
10033677--10033708	15	2.1	15	94	5	55	21	6	0	71	1.07
10033679--10033724	14	3.2	15	82	14	53	23	2	0	73	0.94
10033680--10033736	16	3.7	15	78	19	55	22	1	0	75	0.90
10040093--10040228	55	2.3	60	80	10	167	30	1	8	59	1.37
10042184--10042216	3	11.0	3	93	0	57	33	3	0	63	1.10
10043539--10043598	27	2.2	27	100	0	120	25	3	18	53	1.60
10044342--10044454	57	2.0	57	89	0	172	41	5	18	34	1.73
10044460--10044531	15	4.8	15	79	6	83	29	8	19	43	1.80
10044460--10044531	30	2.4	30	88	4	101	29	8	19	43	1.80
10046189--10046252	24	2.8	23	83	9	69	23	21	17	37	1.94
10046212--10046262	24	2.1	24	85	0	66	19	15	21	43	1.88
10051211--10051269	2	29.5	2	100	0	118	50	0	0	49	1.00
10052601--10052627	2	13.5	2	100	0	54	51	0	0	48	1.00
10054937--10055130	30	6.4	29	70	13	101	38	7	0	53	1.34
10054932--10055371	31	14.6	30	72	14	250	38	7	1	52	1.39
10055379--10055444	30	2.2	30	94	0	114	54	1	9	34	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10055460--10055585	31	4.3	29	77	14	116	57	0	3	38	1.14
10060476--10060514	15	2.6	15	88	8	53	17	7	0	74	1.05
10060488--10060519	15	2.1	15	94	5	55	21	6	0	71	1.07
10060490--10060535	14	3.2	15	82	14	53	23	2	0	73	0.94
10060491--10060547	16	3.7	15	78	19	55	22	1	0	75	0.90
10066822--10066958	56	2.3	60	81	9	176	29	1	8	59	1.36
10068900--10068932	3	11.0	3	93	0	57	33	3	0	63	1.10
10070262--10070324	27	2.3	27	100	0	126	25	3	19	52	1.60
10071075--10071187	57	2.0	57	89	0	172	41	5	18	34	1.73
10071193--10071264	15	4.8	15	79	6	83	29	8	19	43	1.80
10071193--10071264	30	2.4	30	88	4	101	29	8	19	43	1.80
10076562--10076698	56	2.3	60	81	9	176	29	1	8	59	1.36
10079517--10079829	162	1.9	162	94	0	554	38	13	17	30	1.88
10080437--10080508	19	3.7	19	70	17	67	47	0	15	37	1.46
10082268--10082311	21	2.1	21	100	0	88	43	9	34	13	1.76
10082345--10082411	33	2.0	33	91	0	107	29	2	43	23	1.69
10082593--10082629	18	2.1	18	94	0	65	54	0	32	13	1.40
10084173--10084221	19	2.6	19	96	0	89	32	2	10	55	1.45
10084533--10084571	15	2.6	15	95	0	69	38	25	12	23	1.90
10084588--10085748	199	5.8	200	86	2	1555	36	13	16	32	1.88
10084588--10085755	402	2.9	401	90	1	1761	36	13	16	32	1.88
10087225--10087277	6	8.8	6	89	0	61	39	1	30	28	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10088591--10088627	18	2.1	18	89	0	56	29	8	10	51	1.65
10088583--10088635	24	2.2	24	89	0	79	33	5	13	47	1.66
10088863--10089631	200	3.8	199	84	4	958	38	13	15	32	1.86
10093271--10093777	200	2.5	197	84	4	669	37	14	15	31	1.88
10093795--10093842	23	2.1	23	84	0	60	37	16	6	39	1.74
10097446--10097529	7	12.0	7	100	0	168	57	0	42	0	0.99
10104558--10104603	18	2.8	16	87	12	74	32	15	15	36	1.88
10106255--10106283	13	2.2	13	100	0	58	44	10	13	31	1.78
10107957--10108066	20	5.7	20	82	9	129	30	29	13	27	1.94
10108113--10108166	16	3.0	18	76	15	58	27	24	16	31	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78