genome.fa.s2890.2.7.7.80.10.50.1000.13.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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  ( 2516 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)
3058894--3058964	33	2.2	33	92	0	115	12	22	16	47	1.80
3059044--3059153	21	5.8	20	74	17	108	45	18	24	11	1.83
3059037--3059153	41	3.1	38	81	14	145	46	17	25	11	1.81
3059104--3059160	14	3.7	14	75	20	60	43	22	24	8	1.81
3059096--3059176	33	2.5	33	95	0	144	46	22	22	8	1.78
3059172--3059299	19	7.1	19	69	19	78	12	24	17	45	1.83
3059177--3059299	33	3.5	33	85	10	156	12	23	17	46	1.82
3059194--3059250	14	3.7	14	72	20	51	10	24	21	43	1.83
3059238--3059298	20	3.0	21	78	4	79	13	22	16	47	1.81
3059234--3059289	21	2.8	20	81	5	67	14	25	17	42	1.87
3060998--3061230	93	2.5	93	99	0	457	21	13	18	45	1.84
3061231--3061382	33	4.2	36	85	9	165	48	26	16	8	1.74
3061231--3061352	52	2.2	55	90	8	187	48	25	17	9	1.76
3061340--3061366	14	1.9	14	100	0	54	48	29	14	7	1.71
3061250--3061382	52	2.6	52	77	7	162	48	27	15	8	1.73
3061231--3061382	19	8.5	19	79	15	171	48	26	16	8	1.74
3061378--3061550	19	9.6	19	78	12	168	10	19	23	46	1.81
3061400--3061456	14	3.7	14	77	20	60	10	21	22	45	1.82
3061378--3061550	33	4.8	38	82	5	168	10	19	23	46	1.81
3063472--3063507	14	2.6	14	95	0	63	33	0	22	44	1.53
3063614--3063711	19	5.4	19	82	13	134	45	17	21	15	1.84
3063614--3063730	53	2.2	53	96	1	218	44	17	23	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3063726--3063889	33	4.8	33	73	19	156	14	21	17	46	1.83
3063777--3063956	86	2.1	84	84	12	224	13	22	17	46	1.83
3063758--3063942	33	5.2	34	72	17	146	14	21	17	47	1.83
3063720--3063942	19	12.7	19	75	19	225	14	21	17	45	1.85
3063720--3063942	53	4.2	53	94	1	371	14	21	17	45	1.85
3066342--3066570	20	11.4	20	84	3	228	20	17	25	37	1.94
3068484--3068559	36	2.1	36	97	0	143	43	14	10	31	1.79
3073036--3073065	15	2.0	15	100	0	60	13	46	26	13	1.80
3073487--3073562	36	2.1	36	97	0	143	43	14	10	31	1.79
3075774--3075871	16	6.1	16	67	2	61	39	29	16	14	1.88
3076569--3076668	32	3.1	32	77	5	112	37	31	12	20	1.89
3079194--3079250	19	2.9	19	80	15	62	63	3	0	33	1.12
3081294--3081341	22	2.2	22	100	0	96	22	20	18	37	1.94
3085830--3085922	45	2.1	45	85	4	125	24	30	23	21	1.99
3085850--3085945	45	2.1	45	82	3	113	25	32	25	17	1.97
3086073--3086179	48	2.2	48	83	0	133	28	24	21	26	1.99
3086575--3086614	15	2.7	15	88	0	53	30	12	35	22	1.91
3086559--3086629	30	2.4	30	83	4	90	26	16	35	21	1.95
3096400--3096725	44	7.4	43	76	9	221	21	20	24	33	1.97
3096435--3096725	133	2.2	132	81	5	345	21	19	24	34	1.97
3096435--3096761	44	7.4	44	80	2	244	22	19	24	33	1.97
3096476--3096769	133	2.2	133	78	4	315	21	19	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113137--3113176	15	2.6	16	92	4	64	70	0	10	20	1.16
3124418--3124455	19	2.0	19	89	0	58	55	0	2	42	1.14
3124967--3125025	25	2.4	25	100	0	118	44	20	6	28	1.77
3129802--3129841	21	1.9	21	84	0	53	30	30	7	32	1.85
3131462--3131536	6	12.0	6	72	13	53	76	0	6	17	1.00
3131466--3131511	11	4.3	11	76	13	51	78	0	4	17	0.91
3131482--3131525	21	2.1	21	100	0	88	72	0	9	18	1.10
3131471--3131536	27	2.6	25	79	9	69	75	0	7	16	1.02
3139127--3139184	29	2.0	30	89	3	91	53	1	0	44	1.10
3140088--3140139	22	2.3	23	93	3	88	28	3	34	32	1.76
3140108--3140251	36	4.0	36	96	0	270	28	5	36	29	1.80
3140105--3140248	11	12.2	11	71	22	89	28	4	36	30	1.78
3145866--3146114	36	6.9	36	95	0	437	29	4	35	30	1.77
3151732--3151791	11	5.1	11	73	18	50	46	1	10	41	1.47
3151687--3151886	35	5.6	36	84	7	212	43	4	11	41	1.60
3151687--3151878	71	2.7	71	83	7	226	43	4	10	41	1.61
3151850--3151898	23	2.1	23	88	0	71	42	2	14	40	1.57
3151815--3151948	63	2.2	58	80	10	135	44	3	12	39	1.61
3151910--3152003	35	2.6	37	80	6	113	44	4	13	37	1.64
3151764--3152002	134	1.8	130	82	8	304	43	4	12	38	1.64
3151987--3152032	13	3.1	15	74	22	51	58	6	2	32	1.36
3153290--3153424	22	6.0	22	65	24	59	17	7	2	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153298--3153381	22	3.8	21	75	17	64	20	5	1	72	1.12
3153355--3153395	12	3.4	13	80	16	52	19	7	0	73	1.07
3164192--3164241	24	2.1	24	96	0	91	52	8	10	30	1.64
3165958--3166224	19	13.9	18	67	18	112	27	10	22	38	1.88
3165959--3166143	39	4.8	39	72	10	105	28	10	22	38	1.87
3165958--3166330	58	6.4	57	75	7	279	29	11	21	38	1.88
3166239--3166313	39	1.9	39	91	0	123	32	12	20	36	1.89
3166287--3166330	20	2.2	20	84	8	54	27	9	15	47	1.76
3166243--3166338	39	2.5	39	84	0	111	31	12	18	37	1.88
3167290--3167350	6	10.2	6	100	0	122	50	0	16	32	1.45
3171845--3171876	15	2.1	15	94	0	55	53	9	0	37	1.34
3173788--3173833	21	2.2	21	100	0	92	43	19	13	23	1.86
3177897--3177959	31	2.1	30	88	5	92	36	9	19	34	1.84
3185347--3185407	32	1.9	31	83	3	77	32	8	24	34	1.85
3187414--3187678	132	2.0	133	99	0	523	36	18	20	25	1.95
3204570--3204603	17	2.0	18	88	11	54	38	2	11	47	1.55
3207676--3207723	15	2.9	17	81	12	73	27	4	35	33	1.76
3218624--3218670	21	2.2	21	77	7	51	19	8	2	70	1.24
3228941--3229152	106	2.0	105	94	5	374	32	28	8	30	1.87
3239535--3239974	44	10.0	44	88	0	585	23	22	12	41	1.87
3239854--3239925	20	3.4	20	67	14	63	23	22	9	44	1.82
3253185--3253266	33	2.5	33	98	2	157	37	14	24	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3253646--3253877	54	4.3	54	93	0	383	33	13	17	35	1.89
3257594--3257918	162	2.0	162	100	0	650	30	10	29	29	1.90
3259107--3259149	19	2.3	19	95	0	77	30	4	30	34	1.78
3259387--3259412	3	8.7	3	100	0	52	0	30	0	69	0.89
3259982--3260181	94	2.1	95	88	0	294	40	11	23	25	1.87
3260523--3260859	54	6.2	54	93	0	530	32	13	16	36	1.88
3268404--3268442	16	2.3	16	86	8	51	61	7	5	25	1.44
3270495--3270538	8	5.2	8	80	20	54	75	2	2	20	1.03
3270562--3270653	16	5.7	15	68	16	51	70	2	7	19	1.22
3270646--3270709	20	3.2	20	72	14	60	68	1	3	26	1.13
3271095--3271348	126	2.0	126	90	0	400	25	29	16	29	1.97
3281077--3281122	18	2.4	20	78	14	60	58	4	2	34	1.30
3281144--3281380	38	6.5	37	76	14	224	45	6	5	42	1.52
3281184--3281382	77	2.7	74	88	6	269	44	5	5	44	1.49
3281375--3281411	2	18.5	2	100	0	74	48	0	0	51	1.00
3281291--3281484	101	1.9	98	83	9	248	44	5	2	47	1.39
3281391--3281486	39	2.4	40	84	6	115	41	5	3	50	1.40
3281481--3281519	13	3.0	13	96	0	69	56	5	0	38	1.22
3281286--3281540	141	1.8	141	80	10	315	47	5	1	45	1.37
3282119--3282303	85	2.2	83	86	2	244	24	16	20	38	1.92
3282683--3283248	85	6.6	85	83	1	668	27	18	19	34	1.95
3282683--3283248	171	3.3	170	84	2	697	27	18	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282713--3283245	256	2.1	256	88	0	789	26	18	19	35	1.95
3285361--3285407	12	4.1	12	78	10	53	0	17	4	78	0.90
3287740--3287910	92	1.9	90	92	2	288	38	10	6	44	1.65
3290138--3290179	8	5.2	8	78	21	52	76	0	2	21	0.90
3290140--3290179	11	3.7	11	84	15	57	75	0	2	22	0.93
3290087--3290235	65	2.3	64	81	14	164	69	1	10	18	1.25
3290251--3290305	14	3.8	14	73	17	58	67	0	5	27	1.12
3290641--3290712	34	2.2	33	87	2	99	20	26	16	36	1.94
3291155--3291226	20	3.8	20	71	14	71	23	19	33	23	1.97
3291448--3291504	18	2.9	19	70	12	53	47	8	15	28	1.75

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