genome.fa.s8229.2.7.7.80.10.50.1000.15.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

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

This is table  15  of  17  ( 2034 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)
3013457--3013549	27	3.4	27	86	4	125	38	8	3	49	1.50
3013359--3013617	114	2.2	116	79	10	276	40	9	3	47	1.51
3013457--3013574	54	2.3	54	83	12	151	40	8	2	48	1.47
3013559--3013590	2	16.0	2	93	0	55	50	3	0	46	1.17
3013457--3013576	27	4.6	27	75	13	108	40	8	2	48	1.47
3013463--3013631	48	3.5	47	68	23	120	41	8	2	46	1.50
3014141--3014669	200	2.7	200	79	2	555	27	16	18	37	1.92
3014401--3015112	379	1.9	379	81	3	869	25	16	20	36	1.94
3016591--3017302	199	3.7	195	73	11	568	25	16	21	36	1.94
3016591--3017302	379	1.9	379	82	3	887	25	16	21	36	1.94
3022039--3022086	20	2.3	20	85	3	69	12	27	27	33	1.92
3022050--3022087	10	3.8	10	80	13	51	10	28	28	31	1.90
3022115--3022157	22	2.0	22	100	0	86	23	46	18	11	1.82
3029103--3029146	10	4.4	10	85	8	54	13	27	27	31	1.94
3029114--3029173	9	6.3	9	77	9	57	16	28	26	28	1.97
3029114--3029173	19	3.2	19	72	6	59	16	28	26	28	1.97
3029179--3029212	17	2.0	17	100	0	68	17	47	23	11	1.81
3037190--3037261	19	3.8	19	98	0	135	27	22	34	15	1.94
3047594--3047631	18	2.1	18	90	0	58	18	7	0	73	1.06
3052463--3052492	13	2.2	14	94	5	53	46	16	3	33	1.64
3059257--3059287	4	7.5	4	96	3	53	70	0	3	25	1.02
3061071--3061382	153	2.0	153	96	0	579	49	5	18	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3074257--3074302	18	2.5	18	85	3	56	56	2	0	41	1.11
3075127--3075187	31	2.0	29	87	6	86	62	9	8	19	1.51
3076295--3076324	3	10.0	3	92	0	51	36	0	0	63	0.95
3076464--3077579	55	20.3	53	83	8	775	28	23	16	31	1.96
3076492--3077361	110	7.9	109	85	7	878	28	23	15	31	1.95
3077314--3077580	107	2.4	107	86	3	318	25	23	17	33	1.96
3077587--3077662	37	2.1	37	85	9	102	18	18	18	44	1.87
3078209--3078250	20	2.2	19	86	4	57	64	2	0	33	1.07
3078117--3078354	120	2.0	120	82	4	295	45	7	7	38	1.63
3079849--3079896	3	17.0	3	79	12	57	62	0	2	35	1.07
3079858--3079897	14	2.9	14	85	3	55	65	0	0	35	0.93
3080101--3080778	113	5.9	115	79	13	464	28	19	14	37	1.91
3080245--3080778	113	4.8	113	88	5	800	29	19	14	37	1.90
3080245--3080778	222	2.4	223	93	2	901	29	19	14	37	1.90
3080805--3080978	76	2.3	76	89	0	267	33	21	19	25	1.97
3081657--3081733	22	3.5	22	90	0	127	40	15	10	33	1.81
3084095--3084123	14	2.1	14	100	0	58	37	20	6	34	1.80
3090395--3090425	9	3.3	9	95	4	53	77	0	12	9	0.99
3091571--3091786	111	1.9	112	79	8	244	43	9	8	37	1.69
3093301--3093345	3	16.0	3	77	13	51	62	0	2	35	1.08
3093302--3093352	11	4.7	11	76	11	52	66	0	1	31	1.03
3093587--3093781	37	5.3	37	88	3	270	23	19	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3093587--3093772	73	2.5	74	89	3	270	24	19	22	34	1.96
3099156--3099229	21	3.5	21	90	3	114	10	21	21	45	1.82
3112276--3112320	22	2.1	22	91	4	74	33	15	6	44	1.73
3112760--3112793	2	17.0	2	100	0	68	50	0	0	50	1.00
3114099--3114140	16	2.6	16	88	0	66	23	26	7	42	1.80
3115660--3115700	20	2.2	20	86	8	59	21	19	14	43	1.87
3118851--3118914	9	7.8	9	69	25	52	25	29	4	40	1.76
3118850--3118939	16	5.6	16	90	0	144	24	27	5	42	1.77
3120506--3120538	17	2.0	16	94	5	57	66	18	6	9	1.40
3120506--3120543	15	2.4	16	87	12	53	63	21	5	10	1.46
3122034--3122098	23	2.8	23	83	4	78	26	23	29	21	1.99
3124941--3125162	117	1.9	117	83	5	288	28	15	9	47	1.75
3126754--3126787	12	2.8	12	100	0	68	35	8	17	38	1.81
3128616--3128655	20	2.0	21	90	5	64	27	17	22	32	1.96
3132047--3132077	11	2.7	12	95	5	55	61	0	0	38	0.96
3134184--3134225	21	2.0	21	100	0	84	19	23	19	38	1.93
3136346--3136538	96	2.0	96	97	0	368	30	16	15	37	1.89
3138493--3138531	21	1.9	19	90	10	60	51	2	5	41	1.38
3139119--3139171	21	2.5	21	87	0	79	32	28	20	18	1.97
3143269--3143326	21	2.8	21	87	10	91	34	31	15	18	1.93
3145857--3145884	13	2.2	13	100	0	56	14	28	21	35	1.92
3146019--3146051	17	1.9	18	88	11	52	30	6	9	54	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3152444--3152512	30	2.3	30	82	0	84	24	7	39	28	1.82
3156507--3156559	23	2.5	21	77	14	63	43	0	1	54	1.11
3156515--3156559	23	2.0	23	90	0	72	44	0	2	53	1.13
3156516--3156584	23	3.0	23	82	6	68	46	0	2	50	1.16
3156507--3156588	35	2.4	34	74	22	84	43	0	2	53	1.13
3156554--3156622	19	3.5	20	75	11	63	49	1	1	47	1.19
3156710--3156772	23	2.7	23	97	0	117	39	0	3	57	1.15
3156757--3156805	22	2.2	22	85	7	64	44	2	2	51	1.24
3162258--3162286	2	14.5	2	100	0	58	51	0	0	48	1.00
3168284--3168448	20	8.2	20	80	5	156	24	19	21	34	1.96
3168279--3168435	60	2.6	60	82	2	190	24	19	21	33	1.97
3168284--3168448	40	4.1	40	80	1	179	24	19	21	34	1.96
3169159--3169188	11	2.6	12	94	5	53	30	20	23	26	1.98
3170993--3171033	21	1.9	22	90	5	66	36	12	12	39	1.80
3171574--3171626	23	2.4	23	82	14	67	52	1	1	43	1.23
3172061--3172108	23	2.1	23	92	0	78	43	0	0	56	0.99
3172065--3172133	23	3.0	23	82	6	68	46	0	1	52	1.09
3172248--3172298	23	2.2	23	89	0	75	43	1	0	54	1.11
3172262--3172296	18	1.9	18	88	0	52	40	0	0	60	0.97
3172288--3172334	22	2.1	23	88	4	69	53	0	2	44	1.12
3172261--3172340	32	2.5	33	82	12	94	50	0	1	48	1.08
3172296--3172339	22	2.0	22	82	8	54	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3175076--3175154	31	2.5	30	78	15	79	50	0	3	45	1.19
3175170--3175214	23	2.0	23	90	0	72	44	0	2	53	1.13
3175171--3175221	23	2.2	23	85	0	66	47	0	1	50	1.12
3175209--3175277	19	3.6	19	73	21	63	47	1	2	47	1.25
3175384--3175430	22	2.1	23	88	4	69	53	0	0	46	1.00
3175357--3175436	32	2.4	34	84	12	105	50	0	1	48	1.08
3175391--3175453	22	2.9	21	79	11	56	52	0	0	47	1.00
3175387--3175443	22	2.5	22	80	8	62	54	0	0	45	0.99
3175414--3175463	22	2.3	23	82	6	59	44	0	2	54	1.11
3177368--3177401	16	2.1	16	88	0	50	20	5	8	64	1.43
3184698--3184805	20	5.4	20	81	4	128	24	19	21	35	1.96
3184710--3184821	20	5.6	20	82	2	127	25	16	22	36	1.94
3186539--3186576	15	2.5	15	87	12	51	18	2	7	71	1.23
3186529--3186576	17	3.0	15	82	17	53	20	4	6	68	1.28
3188105--3188160	24	2.5	20	80	13	58	51	3	1	42	1.29
3188530--3188581	27	2.0	27	84	3	70	51	0	5	42	1.25
3188612--3188662	23	2.2	23	82	0	57	45	1	0	52	1.12
3188795--3188845	23	2.2	23	89	0	75	43	1	0	54	1.11
3188809--3188843	18	1.9	18	88	0	52	40	0	0	60	0.97
3193048--3193091	16	2.9	15	77	9	54	22	9	9	59	1.56
3194543--3194580	19	2.0	19	85	10	51	42	7	15	34	1.76
3200154--3200298	20	7.2	20	83	6	170	22	17	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3200154--3200298	40	3.6	40	85	1	193	22	17	22	37	1.94
3202983--3203023	21	1.9	22	90	5	66	36	9	12	41	1.76
3203755--3203793	21	1.9	20	85	15	53	46	5	5	43	1.48
3203966--3204036	32	2.3	31	83	9	92	45	1	4	49	1.30
3204031--3204064	16	2.1	16	88	0	50	52	0	2	44	1.16
3215836--3215984	20	7.4	20	84	0	172	26	18	19	35	1.95
3215853--3215997	40	3.6	40	87	1	202	24	18	21	35	1.95
3217979--3218023	16	2.9	16	87	9	58	48	4	2	44	1.35
3218589--3218629	21	1.9	22	95	5	75	39	9	12	39	1.76
3218957--3219325	74	5.1	74	68	21	201	44	3	7	45	1.48

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