genome.fa.s8495.2.7.7.80.10.50.1000.13.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  13  of  21  ( 2505 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)
2899926--2899959	2	17.0	2	93	0	59	50	2	0	47	1.16
2913915--2913954	21	1.9	21	89	0	62	10	25	40	25	1.86
2932459--2932512	21	2.5	22	85	5	67	59	0	0	40	0.98
2932709--2933069	180	2.0	179	98	0	704	24	36	22	17	1.95
2933617--2933668	19	2.7	19	79	8	61	38	1	0	59	1.08
2933680--2933730	27	2.0	26	85	14	70	43	3	5	47	1.46
2935882--2935918	17	2.2	17	95	0	65	51	0	13	35	1.41
2949165--2949206	22	1.9	22	85	9	59	16	16	4	61	1.50
2970119--2970163	2	22.5	2	100	0	90	48	0	0	51	1.00
2977640--2977688	22	2.2	22	81	0	62	28	18	16	36	1.92
2987989--2988044	28	2.0	28	100	0	112	39	17	17	25	1.92
2989868--2989951	28	2.8	30	85	10	109	34	15	21	28	1.94
2998266--2998454	63	2.9	66	79	6	195	31	28	13	26	1.94
3000550--3000596	23	2.0	23	88	8	69	34	12	6	46	1.67
3011981--3012014	3	11.7	3	87	6	52	32	2	0	64	1.08
3013333--3013562	115	2.0	115	98	0	442	29	14	19	36	1.91
3014151--3014214	33	2.0	32	84	9	85	21	23	14	40	1.90
3019446--3019472	5	5.4	5	100	0	54	59	0	40	0	0.98
3026776--3026818	3	14.7	3	81	13	54	34	0	2	62	1.08
3026778--3026816	20	2.0	20	90	10	62	33	0	2	64	1.08
3041168--3041269	36	2.9	36	88	7	138	43	18	18	19	1.89
3041451--3041492	3	14.7	3	80	9	52	33	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3047245--3047286	16	2.6	16	88	0	66	54	26	2	16	1.54
3047675--3047779	37	2.9	35	78	5	111	31	18	11	39	1.86
3048094--3048323	70	3.4	66	77	8	221	28	17	12	41	1.85
3048346--3048688	138	2.5	136	78	5	316	28	29	16	25	1.97
3064500--3064544	2	22.5	2	100	0	90	48	0	0	51	1.00
3068877--3069216	45	7.5	45	90	2	504	27	24	11	36	1.90
3068877--3069264	90	4.3	89	88	2	467	26	24	11	37	1.89
3068905--3069264	135	2.7	134	89	3	481	26	24	11	37	1.90
3069338--3069694	81	4.5	81	86	4	494	29	24	12	33	1.92
3069652--3069800	68	2.2	68	90	2	237	28	25	15	30	1.96
3069752--3069853	53	1.9	53	93	0	177	29	23	18	28	1.98
3069680--3069921	121	2.0	121	92	1	405	28	24	17	29	1.97
3069801--3069959	68	2.4	67	91	1	255	28	22	17	30	1.97
3070166--3070366	54	3.7	54	89	2	287	32	21	12	33	1.91
3070166--3070366	109	1.9	108	89	1	312	32	21	12	33	1.91
3074180--3074510	45	7.4	45	82	4	352	27	24	10	36	1.89
3074180--3074465	89	3.2	88	85	4	362	28	25	11	35	1.90
3074568--3074954	81	4.8	81	84	1	465	31	22	10	34	1.88
3074555--3074950	161	2.5	161	84	1	497	31	23	10	34	1.89
3074897--3075214	67	4.8	68	88	5	429	28	24	14	32	1.95
3075425--3075621	54	3.7	54	86	2	256	34	20	11	33	1.89
3075419--3075621	107	1.9	105	86	4	291	34	20	11	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3079583--3079853	54	5.1	54	82	4	325	26	16	20	36	1.94
3080545--3080779	44	5.4	44	83	3	262	30	15	24	29	1.95
3080526--3080779	131	1.9	130	84	5	334	32	16	22	28	1.96
3092498--3092554	3	19.0	3	100	0	114	33	0	0	66	0.92
3094680--3094708	15	1.9	15	100	0	58	10	13	0	75	1.04
3094678--3094731	12	4.2	13	77	17	60	9	12	1	75	1.11
3096909--3096976	35	1.9	35	84	3	91	22	14	8	54	1.67
3097445--3097704	99	2.6	100	85	3	330	34	16	16	31	1.92
3098838--3100295	84	17.5	84	83	3	1579	34	23	18	23	1.96
3098838--3100295	334	4.4	334	81	5	1559	34	23	18	23	1.96
3100928--3100978	25	2.2	22	86	10	66	41	11	0	47	1.40
3102174--3102226	3	17.7	3	96	0	97	33	1	0	64	1.05
3102148--3102279	12	10.8	13	73	18	83	37	3	1	58	1.23
3102331--3102364	12	2.9	12	86	4	52	8	8	2	79	1.03
3116093--3116144	20	2.5	21	78	6	61	40	19	25	15	1.90
3116133--3116246	20	5.7	20	83	6	113	31	25	18	24	1.97
3116130--3116246	61	1.9	61	85	0	162	33	24	17	23	1.97
3116778--3116820	18	2.4	18	84	7	61	51	25	16	6	1.69
3116830--3116917	33	2.6	33	92	1	140	11	25	25	38	1.89
3116885--3116942	20	2.9	20	80	10	64	13	24	18	43	1.87
3118995--3119061	21	3.2	21	66	6	55	23	35	20	19	1.95
3118943--3119061	42	2.8	42	81	5	107	22	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3120420--3120455	14	2.6	14	95	0	63	30	0	25	44	1.54
3120562--3120629	20	3.8	19	72	21	74	45	19	22	13	1.84
3120634--3120751	19	6.7	19	65	19	67	13	22	20	43	1.87
3120638--3120731	33	2.8	33	96	0	170	12	23	19	44	1.85
3123023--3123047	12	2.1	12	100	0	50	0	28	0	72	0.86
3123222--3123275	24	2.2	24	90	0	81	38	20	16	24	1.92
3124332--3124389	20	2.9	20	97	0	107	37	24	22	15	1.93
3124412--3124485	19	4.5	16	83	16	66	13	20	18	47	1.82
3124408--3124475	19	3.8	19	87	12	101	13	22	17	47	1.82
3124573--3124609	14	2.6	14	86	0	56	48	21	0	29	1.50
3126471--3126537	19	3.5	19	83	4	89	37	23	23	14	1.93
3126526--3126583	14	3.9	14	75	16	62	48	24	17	10	1.78
3126510--3126588	32	2.4	33	93	2	133	46	22	18	11	1.81
3126595--3126659	18	3.8	18	74	17	66	12	18	21	47	1.81
3126617--3126674	14	3.9	14	72	16	53	10	13	24	51	1.72
3126600--3126690	32	2.8	33	88	3	139	13	16	20	49	1.79
3126675--3126718	20	2.2	20	84	4	54	20	25	18	36	1.95
3126687--3126729	20	2.2	20	86	0	59	16	23	25	34	1.95
3126999--3127045	21	2.2	21	84	0	58	29	29	17	23	1.97
3127211--3127255	18	2.5	18	88	0	72	13	15	44	26	1.83
3128571--3128644	20	3.8	20	81	1	69	43	22	17	16	1.88
3129109--3129181	20	3.7	20	92	0	119	26	19	28	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129089--3129224	41	3.3	41	78	6	150	24	16	25	33	1.96
3129212--3129304	41	2.3	41	100	0	150	17	22	18	41	1.90
3129212--3129304	20	4.5	21	72	4	82	17	22	18	41	1.90
3134351--3134387	15	2.5	15	100	0	74	37	8	32	21	1.83
3142309--3142351	5	8.4	5	92	2	59	76	4	2	16	1.05
3142702--3142900	30	6.7	28	69	16	82	58	7	14	19	1.59
3142684--3142894	59	3.5	60	75	7	160	58	8	14	18	1.60
3144476--3144529	3	17.7	3	92	3	63	57	0	7	35	1.27
3144474--3144508	13	2.8	13	95	4	63	62	0	0	37	0.95
3148549--3148590	20	2.0	21	90	4	68	11	2	14	71	1.24
3148583--3148622	5	7.6	5	89	10	62	20	0	0	80	0.72
3148582--3148622	21	1.9	22	95	5	75	19	0	0	80	0.71
3148582--3148622	11	3.8	11	90	6	66	19	0	0	80	0.71
3149987--3150033	20	2.4	19	79	10	58	53	8	17	21	1.70
3149775--3150249	182	2.6	183	88	2	697	42	13	17	26	1.86
3150170--3150216	20	2.4	19	82	10	67	53	10	17	19	1.72
3150181--3150221	20	2.2	19	83	12	50	51	14	17	17	1.77
3152444--3152487	21	2.1	21	91	0	70	40	11	31	15	1.83
3154354--3154402	19	2.6	19	96	0	89	32	0	10	57	1.32
3154354--3154414	19	3.3	19	90	2	79	34	0	11	54	1.37
3154632--3155995	200	6.8	200	95	0	2397	35	14	18	30	1.91
3157454--3157529	6	12.7	6	84	0	71	39	6	32	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3157454--3157529	12	6.3	12	89	0	89	39	6	32	21	1.79
3157471--3157530	3	20.0	3	84	0	66	38	5	33	23	1.76
3158740--3159328	183	3.2	183	94	2	1022	34	14	17	33	1.90
3159202--3159442	118	2.0	120	93	3	416	31	14	16	37	1.89
3159019--3159667	301	2.1	303	95	0	1176	34	14	16	34	1.89
3162916--3162988	23	3.2	23	90	0	110	34	4	20	41	1.72
3163397--3163469	23	3.2	23	92	0	119	34	5	21	38	1.77
3163873--3163943	23	3.2	22	88	4	90	35	4	22	38	1.74
3162591--3164776	474	4.6	487	89	7	3362	41	7	10	39	1.68
3162939--3164763	450	3.9	447	85	10	2066	41	7	11	40	1.69

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21