genome.fa.s9610.2.7.7.80.10.50.1000.15.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  15  of  18  ( 2160 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)
3073478--3073534	20	2.8	20	86	0	87	42	19	17	21	1.90
3073731--3073796	22	3.0	22	93	0	114	25	39	13	21	1.90
3074150--3074219	20	3.5	20	92	0	104	20	17	27	35	1.94
3076117--3076168	20	2.6	20	90	0	86	42	25	15	17	1.88
3076140--3076294	34	4.4	34	71	16	127	43	21	19	16	1.88
3076208--3076275	20	3.4	20	89	0	91	36	23	19	20	1.95
3076320--3076391	20	3.6	20	90	0	108	25	18	20	36	1.95
3076890--3076994	21	5.0	21	74	3	95	20	37	19	22	1.95
3076887--3076997	42	2.6	42	78	5	118	20	37	18	22	1.94
3078622--3078718	20	4.9	20	87	3	135	18	22	22	36	1.95
3078706--3078732	14	1.9	14	100	0	54	7	22	29	40	1.81
3081147--3081201	24	2.2	25	90	3	85	41	20	18	20	1.90
3082045--3082091	20	2.3	20	92	0	76	21	19	27	31	1.97
3082078--3082190	20	5.7	20	91	0	181	21	18	19	40	1.91
3082187--3082232	21	2.2	21	92	0	74	39	17	26	17	1.91
3097278--3097364	44	2.0	44	93	0	147	36	10	3	49	1.54
3108509--3108686	60	3.0	58	77	11	164	33	24	6	36	1.80
3108727--3108887	60	2.7	59	79	2	162	32	5	24	37	1.79
3112094--3112132	20	2.0	20	84	0	51	69	12	0	17	1.19
3113524--3113616	3	30.7	3	93	2	159	63	0	2	34	1.07
3113935--3114606	113	6.0	113	96	0	1175	28	19	14	37	1.91
3115450--3115991	82	6.6	83	94	2	898	35	22	13	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3117047--3117106	5	11.8	5	77	15	61	0	16	0	83	0.65
3117045--3117107	13	5.4	11	77	19	65	0	15	0	84	0.63
3117031--3117101	32	2.3	30	86	9	106	0	16	0	83	0.66
3117031--3117108	41	1.9	39	75	14	61	0	17	0	82	0.68
3127737--3127782	24	2.0	23	86	4	65	58	2	2	36	1.22
3128501--3128539	20	2.0	20	84	0	51	69	12	0	17	1.19
3129936--3130090	3	51.7	3	93	0	220	60	0	1	38	1.08
3133899--3133958	31	1.9	31	89	0	93	41	10	8	40	1.69
3136173--3136217	24	1.9	24	86	4	65	48	0	2	48	1.13
3136201--3136247	22	2.1	22	100	0	94	40	0	4	55	1.19
3136230--3136297	26	2.6	25	72	9	64	45	0	1	52	1.09
3136396--3136479	29	2.9	29	77	10	82	32	5	11	50	1.63
3136296--3136580	138	2.1	139	85	3	378	37	5	9	47	1.59
3136589--3136713	69	1.9	66	83	11	166	43	9	4	42	1.58
3136823--3136866	17	2.7	16	89	3	61	52	2	0	45	1.13
3137873--3137909	18	2.1	18	89	0	56	48	5	16	29	1.68
3145743--3145802	23	2.6	24	76	7	61	38	1	10	50	1.46
3152665--3152700	18	2.0	18	94	0	63	19	19	33	27	1.96
3157136--3157187	23	2.3	23	89	0	77	21	30	25	23	1.99
3157148--3157203	23	2.4	23	87	0	76	23	28	21	26	1.99
3158471--3158606	71	1.9	71	100	0	272	49	10	19	21	1.77
3159931--3159965	18	1.9	18	94	0	61	20	20	34	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3164062--3164111	2	26.5	2	79	18	54	52	0	2	46	1.12
3164096--3164257	40	4.1	40	74	14	138	46	3	4	45	1.40
3164145--3164224	35	2.3	34	81	10	99	46	6	5	42	1.51
3164039--3164268	75	3.1	75	78	9	209	46	3	5	44	1.44
3164145--3164222	34	2.3	34	84	8	97	46	6	5	42	1.51
3164139--3164257	36	3.2	36	74	14	116	47	4	3	45	1.39
3164139--3164301	36	4.4	36	73	14	98	43	3	4	48	1.40
3164132--3164295	75	2.2	73	80	9	188	43	3	4	48	1.40
3165337--3165397	29	2.1	30	87	9	90	27	11	4	55	1.56
3169389--3169504	31	3.7	31	86	3	144	34	18	15	31	1.92
3169656--3169685	14	2.1	15	93	6	53	50	13	0	36	1.42
3171150--3171186	17	2.3	16	90	9	58	54	27	0	18	1.44
3176846--3177066	117	1.9	117	81	7	270	28	14	9	47	1.75
3178346--3178387	20	2.1	21	86	8	61	11	23	42	21	1.86
3182658--3182982	85	3.8	84	81	4	359	35	20	17	27	1.94
3182669--3182981	170	1.8	170	82	4	407	35	19	17	27	1.94
3183742--3183923	36	4.8	35	68	22	109	45	2	6	46	1.40
3183782--3183811	2	15.5	2	93	6	53	53	0	0	46	1.00
3183749--3183848	47	2.1	50	87	9	145	46	3	5	46	1.40
3183796--3183923	36	3.5	35	84	8	159	45	2	6	46	1.41
3185641--3185676	17	2.1	17	94	0	63	58	16	8	16	1.61
3193011--3193052	13	2.9	14	79	13	50	33	26	7	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193023--3193049	13	2.1	13	100	0	54	37	25	0	37	1.57
3193692--3193733	20	2.0	21	95	4	77	40	9	9	40	1.70
3201059--3201100	21	2.0	21	100	0	84	14	19	23	42	1.87
3201837--3201866	11	2.8	11	95	5	53	16	0	0	83	0.65
3201838--3201882	17	2.5	17	92	7	72	13	0	0	86	0.57
3201841--3201882	9	4.6	9	83	16	59	11	0	0	88	0.53
3201843--3201896	17	3.2	16	84	7	63	11	3	1	83	0.85
3201843--3201896	8	6.5	8	87	6	63	11	3	1	83	0.85
3201842--3201901	25	2.3	26	82	5	77	13	3	1	81	0.89
3208236--3208282	20	2.3	20	92	0	85	23	23	21	31	1.98
3209570--3209602	12	2.8	12	95	0	57	63	0	12	24	1.28
3209620--3209871	24	10.7	24	88	2	242	20	7	32	39	1.81
3209620--3209871	18	14.2	18	88	2	242	20	7	32	39	1.81
3209608--3209906	6	50.5	6	89	1	219	21	6	30	41	1.79
3215252--3215351	6	16.7	6	95	0	155	18	12	32	38	1.87
3215830--3215893	31	2.1	30	91	2	101	42	15	21	20	1.89
3219077--3219150	34	2.2	34	82	4	87	35	2	1	60	1.19
3220056--3220101	21	2.2	21	84	7	58	41	2	4	52	1.33
3221342--3221367	13	2.0	13	100	0	52	23	0	0	76	0.78
3222193--3222245	20	2.7	20	88	2	81	13	15	22	49	1.79
3223700--3223796	42	2.3	42	89	0	140	27	37	18	16	1.92
3223915--3223963	21	2.3	21	78	0	53	18	6	38	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223977--3224026	21	2.4	21	80	6	57	20	12	38	30	1.88
3225877--3225949	20	3.7	20	83	0	74	42	17	19	20	1.89
3225978--3226016	20	2.0	20	90	10	62	25	20	17	35	1.95
3226268--3226303	18	2.0	18	88	0	54	22	2	19	55	1.56
3228722--3228755	12	2.8	12	90	0	50	14	0	29	55	1.40
3229508--3229596	20	4.5	19	75	12	65	33	13	23	29	1.93
3229530--3229689	40	4.0	40	74	11	132	28	14	22	35	1.93
3229541--3229635	20	4.7	19	76	7	82	26	13	25	34	1.93
3229630--3229668	20	2.0	20	94	0	69	23	20	17	38	1.93
3229645--3229720	40	1.9	40	83	0	98	27	14	18	39	1.90
3239400--3239484	37	2.3	37	84	6	111	42	18	4	34	1.72
3242415--3243411	498	2.0	499	93	1	1721	22	23	18	35	1.96
3244489--3244608	35	3.3	36	88	6	172	43	19	5	32	1.72
3244537--3244600	20	3.4	20	66	29	59	45	18	4	31	1.70
3250475--3250547	36	2.0	37	84	10	98	43	1	4	50	1.29
3250750--3250820	20	3.5	20	96	3	126	39	19	19	21	1.93
3250749--3250830	20	4.1	20	90	4	69	36	19	20	23	1.95
3251682--3251735	24	2.2	24	93	0	90	20	18	20	40	1.91
3254170--3254214	20	2.3	19	85	14	56	35	24	20	20	1.96
3254633--3254860	41	5.6	41	89	5	322	17	21	23	37	1.94
3254658--3254812	20	7.6	20	76	9	161	14	23	24	38	1.92
3254633--3254856	123	1.8	122	93	3	387	16	21	24	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254934--3254970	6	6.5	6	93	3	51	29	51	16	2	1.58
3255463--3255518	6	9.5	6	98	1	105	0	16	51	32	1.44
3255612--3255649	20	1.9	20	100	0	76	42	21	26	10	1.85
3255617--3255678	21	3.0	21	78	2	72	38	25	19	16	1.92
3255723--3255791	20	3.4	20	74	4	75	40	27	21	10	1.85
3255590--3255751	60	2.7	62	72	16	142	35	21	20	22	1.96
3255714--3255816	41	2.5	41	91	0	161	38	26	18	16	1.92
3255714--3255820	21	5.2	21	68	4	83	39	27	17	15	1.90
3257186--3257226	17	2.4	17	95	0	73	17	24	41	17	1.89
3257220--3257283	19	3.4	19	91	4	94	28	31	25	15	1.96

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