genome.fa.s8016.2.7.7.80.10.50.1000.4.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  4  of  25  ( 2971 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)
743750--743783	14	2.4	14	90	9	52	38	0	5	55	1.24
743750--743792	15	2.9	15	80	13	54	37	0	6	55	1.27
753296--753338	21	2.0	21	90	0	68	51	2	0	46	1.13
762530--762558	10	2.9	10	100	0	58	72	10	0	17	1.11
764667--764706	20	2.0	20	90	0	62	45	0	0	55	0.99
767739--768110	170	2.1	178	88	8	559	41	2	9	46	1.50
769143--769184	13	3.3	13	76	6	50	61	19	14	4	1.49
769136--769195	25	2.4	25	77	2	66	65	13	13	8	1.48
769241--769288	25	2.0	25	84	12	64	70	2	12	14	1.25
773131--773169	19	2.1	19	85	9	53	58	5	7	28	1.47
781956--782022	21	3.2	21	61	23	50	13	17	14	53	1.72
781937--782023	42	2.1	42	97	0	165	14	16	17	51	1.76
783178--783271	26	3.6	27	71	13	72	72	0	8	19	1.10
783233--783317	31	2.9	28	76	21	77	68	1	2	28	1.09
783237--783381	40	3.7	37	76	13	132	66	2	2	27	1.19
783253--783318	31	2.1	31	86	10	91	66	1	3	28	1.15
783237--783381	37	3.7	38	79	10	141	66	2	2	27	1.19
783187--783381	37	5.2	38	72	20	108	68	2	5	24	1.21
783237--783381	77	1.9	76	84	7	195	66	2	2	27	1.19
783880--783987	37	3.0	37	90	2	166	33	13	12	40	1.82
786486--786527	21	2.0	22	90	4	68	50	2	7	40	1.43
786659--786739	2	41.0	2	95	2	146	48	1	0	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
787861--787924	3	21.7	3	78	9	69	32	4	0	62	1.16
790112--790150	2	19.5	2	94	0	69	46	0	2	51	1.14
793794--793890	25	4.0	24	76	12	76	71	10	14	4	1.28
793839--793890	12	4.5	11	84	15	70	73	9	11	5	1.25
793839--793898	22	2.6	24	87	7	81	71	10	13	5	1.28
795077--795114	4	10.0	4	88	11	62	50	26	0	23	1.50
795081--795122	22	2.0	21	90	4	66	50	23	2	23	1.61
795073--795122	26	2.0	25	92	4	82	50	24	2	24	1.60
795573--795811	105	2.3	102	85	7	306	30	19	11	38	1.88
795757--795876	36	3.4	36	79	6	113	30	20	12	35	1.90
796117--796294	27	6.4	27	88	6	259	28	11	15	44	1.80
796117--796306	56	3.4	55	88	6	276	28	11	15	44	1.80
796119--796306	83	2.2	84	92	4	317	29	10	15	44	1.80
796408--796648	30	7.3	30	65	19	124	33	12	10	43	1.77
796416--796696	67	4.2	67	97	1	510	32	11	12	44	1.78
796455--796642	37	5.5	37	67	21	156	32	12	11	43	1.78
796782--797007	120	1.9	121	80	6	271	30	14	12	42	1.82
796903--797029	66	1.9	65	88	1	191	32	14	11	42	1.80
796905--797072	66	2.6	66	82	4	180	30	16	10	41	1.83
797647--797723	28	2.6	28	82	13	93	24	14	12	48	1.79
797662--797743	28	2.9	28	83	3	94	23	13	14	48	1.79
797769--797966	40	4.7	41	76	12	161	24	33	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
797772--798056	129	2.2	132	88	4	416	27	31	17	23	1.97
798263--798326	3	21.7	3	78	9	69	32	4	0	62	1.16
801365--801441	34	2.3	34	95	0	136	42	12	11	32	1.80
801413--801476	23	2.8	23	78	0	65	39	6	14	40	1.71
801446--801492	23	2.0	23	91	0	76	31	6	23	38	1.80
802975--803107	66	2.0	66	100	0	266	44	10	7	37	1.67
803179--803208	14	2.1	15	93	6	53	13	26	23	36	1.92
804280--804318	18	2.2	18	90	0	60	23	2	12	61	1.43
806773--807119	115	3.0	114	97	1	633	38	15	16	29	1.89
807338--807385	18	2.7	18	80	6	53	22	4	10	62	1.44
810348--810408	27	2.3	27	97	0	113	26	36	4	32	1.78
831116--831173	23	2.5	23	82	0	71	31	22	25	20	1.98
833443--833484	17	2.6	16	85	7	57	42	21	0	35	1.53
836127--836192	23	2.9	23	81	0	78	33	22	24	19	1.97
838527--838568	17	2.6	16	85	7	57	42	21	0	35	1.53
841204--841272	23	3.0	23	84	0	102	30	26	26	17	1.97
848900--849245	172	2.0	175	98	1	671	34	25	14	25	1.94
849985--850029	21	2.1	21	100	0	90	35	33	17	13	1.89
876805--876839	13	2.6	14	90	4	54	48	28	0	22	1.51
887850--887895	19	2.4	19	88	0	65	28	2	4	65	1.23
889880--889913	12	2.9	12	86	4	52	50	8	11	29	1.69
890999--891028	9	3.2	9	95	4	51	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
892109--892157	15	3.1	15	77	11	53	79	2	10	8	1.01
895795--895828	12	2.9	12	86	4	52	50	8	11	29	1.69
901540--901589	25	2.0	25	92	0	82	34	10	30	26	1.89
903120--903492	157	2.4	157	84	4	459	47	6	18	27	1.73
918238--918393	60	2.6	60	83	7	174	39	5	21	33	1.77
920148--920326	89	2.0	89	100	0	358	36	13	24	25	1.92
925430--925483	21	2.5	22	80	11	60	25	27	18	27	1.98
927517--927561	23	2.0	23	90	0	72	24	26	26	22	2.00
929274--929314	21	2.0	21	85	0	55	17	24	29	29	1.97
933755--933807	21	2.5	21	81	6	72	20	26	18	33	1.96
933797--933848	20	2.5	21	87	3	70	36	19	23	21	1.95
933834--933971	41	3.4	41	74	4	136	36	23	14	24	1.93
933837--933951	20	5.7	20	73	6	79	34	25	14	25	1.94
934144--934187	22	2.0	22	100	0	88	22	45	13	18	1.84
934451--934509	20	3.0	20	87	0	73	15	18	22	44	1.87
935706--935753	18	2.7	18	93	0	87	27	45	12	14	1.81
936123--936172	18	2.8	18	96	0	91	32	20	4	44	1.70
936323--936378	20	2.8	20	75	2	60	39	21	21	17	1.93
936469--936573	20	5.4	19	82	4	113	17	21	25	35	1.95
936469--936553	39	2.2	38	87	2	116	15	24	24	35	1.94
936921--936977	21	2.8	21	71	20	57	24	42	12	21	1.87
936915--937003	40	2.2	41	83	4	117	23	39	14	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
938527--938580	14	3.5	14	75	22	54	48	18	20	12	1.81
938508--938585	33	2.4	33	88	0	111	44	20	20	14	1.85
938537--938573	19	1.9	19	88	0	56	51	16	21	10	1.74
939635--939679	23	2.0	23	86	0	63	22	17	22	37	1.94
939853--939877	12	2.1	12	100	0	50	72	0	28	0	0.86
942206--942332	33	3.8	33	95	0	218	45	18	22	12	1.83
942206--942330	19	7.4	18	66	25	85	46	18	22	12	1.83
942337--942408	19	4.1	19	76	20	75	11	15	23	50	1.76
942348--942472	33	3.8	33	91	2	180	12	20	21	45	1.84
942382--942472	19	5.3	19	68	24	85	14	21	18	45	1.85
942582--942616	14	2.5	14	90	0	61	45	22	0	31	1.53
943964--944029	21	3.1	21	67	4	53	19	19	36	24	1.95
944002--944081	42	1.9	42	84	0	106	22	17	38	21	1.93
944303--944487	91	2.0	90	91	6	300	47	18	12	21	1.82
946203--946258	14	3.6	14	74	21	58	39	25	25	10	1.87
946182--946277	33	2.9	33	92	1	147	40	22	22	13	1.89
946216--946332	52	2.2	52	92	0	189	44	21	22	11	1.84
946216--946332	19	6.7	19	71	18	101	44	21	22	11	1.84
947610--947652	21	2.0	21	86	0	59	30	27	25	16	1.97
948341--948385	23	2.0	23	86	0	63	20	26	26	26	1.99
954422--954464	21	2.0	21	86	0	59	30	27	25	16	1.97
954821--954860	14	2.7	15	80	3	55	47	7	12	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955153--955197	23	2.0	23	81	0	54	20	24	26	28	1.99
955788--955879	20	4.6	20	86	5	123	21	20	20	36	1.95
955806--956002	41	4.8	41	74	10	170	27	19	19	32	1.96
955876--955931	20	2.7	21	77	5	60	44	16	21	17	1.86
955869--955941	21	3.5	20	79	3	65	38	17	21	21	1.93
955951--956025	21	3.6	21	78	3	71	24	20	20	36	1.95
955808--956025	41	5.3	41	74	5	163	27	19	20	32	1.96
955933--956041	20	5.3	20	72	12	80	23	20	22	33	1.97
956686--956729	2	22.0	2	100	0	88	50	0	0	50	1.00
967912--968039	64	2.0	64	89	3	195	36	18	14	30	1.90

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