genome.fa.s7909.2.7.7.80.10.50.1000.16.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: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3382237

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

This is table  16  of  17  ( 1978 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)
2942163--2942386	124	1.8	123	86	2	324	43	14	17	24	1.87
2942572--2942601	5	6.2	5	92	7	53	20	0	0	80	0.72
2942606--2942671	3	21.3	3	75	6	60	39	0	0	60	0.97
2942594--2942668	15	4.8	16	70	9	57	40	0	0	60	0.97
2947889--2947950	2	31.0	2	100	0	124	50	0	0	50	1.00
2957601--2957686	22	3.9	22	80	8	93	22	25	29	23	1.99
2963029--2963364	109	3.1	109	79	8	353	46	17	14	21	1.83
2964327--2964356	6	5.0	6	91	0	51	36	0	0	63	0.95
2964317--2964356	12	3.2	12	85	3	53	42	0	0	57	0.98
2964568--2965057	133	3.6	134	80	3	513	28	16	21	32	1.95
2965286--2966556	644	2.0	646	89	1	1951	30	19	12	37	1.89
2967005--2967038	14	2.5	13	86	9	50	2	8	0	88	0.62
2967005--2967053	19	2.6	18	90	6	71	4	12	0	83	0.77
2966996--2967062	35	1.9	34	85	8	91	7	11	0	80	0.90
2966995--2967053	17	3.4	16	78	15	55	6	11	0	81	0.87
2967015--2967069	18	3.2	16	78	16	58	7	12	0	80	0.91
2967013--2967078	34	2.0	33	84	3	87	7	16	0	75	1.02
2966996--2967116	24	5.5	24	76	20	74	9	15	0	75	1.04
2967075--2967113	18	2.2	17	90	4	60	10	17	0	71	1.12
2970610--2970648	21	1.9	20	84	5	51	35	20	15	28	1.93
2982188--2982230	20	2.2	20	86	0	59	37	16	11	34	1.85
2991339--2991388	16	2.9	16	75	16	55	24	18	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2991550--2991641	23	4.0	23	75	0	94	19	20	23	35	1.95
2997104--2997391	108	2.7	109	86	1	400	42	18	18	21	1.89
2998313--2998369	6	9.2	6	83	7	51	56	1	0	42	1.10
2998307--2998361	25	2.2	24	81	9	65	58	1	0	40	1.09
2998324--2998362	19	2.1	19	100	0	78	51	0	0	48	1.00
3006071--3006105	18	1.9	18	88	0	52	25	22	11	40	1.88
3007480--3007551	30	2.4	30	85	2	90	38	6	15	38	1.74
3007502--3007560	30	2.0	30	89	0	91	35	6	20	37	1.79
3008635--3008669	16	2.1	17	89	5	54	17	5	11	65	1.43
3010565--3010640	38	2.0	37	82	7	91	48	3	1	46	1.29
3016798--3016924	44	2.9	44	84	2	175	22	17	5	54	1.63
3016902--3016942	14	2.9	14	88	3	55	24	14	4	56	1.58
3017339--3017490	79	1.9	79	94	0	268	38	14	21	25	1.91
3018313--3018359	22	2.1	22	100	0	94	31	14	17	36	1.90
3019412--3019469	27	2.1	27	93	0	98	18	24	24	32	1.97
3019419--3019485	27	2.5	27	87	2	91	19	20	22	37	1.95
3028100--3028129	13	2.2	14	94	5	53	33	0	6	60	1.23
3030375--3030433	24	2.3	27	80	16	63	55	3	0	40	1.16
3030722--3030768	23	2.0	23	87	0	67	14	14	14	55	1.70
3048009--3048120	41	2.8	40	79	14	108	48	4	1	45	1.33
3048116--3048145	15	1.9	16	93	6	53	63	0	0	36	0.95
3055543--3055610	35	1.9	35	91	5	111	26	5	17	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3056192--3056394	74	2.7	75	77	11	200	50	14	6	29	1.67
3056314--3056342	12	2.5	12	94	5	51	62	10	0	27	1.28
3059118--3059166	22	2.2	23	85	3	64	61	4	22	12	1.48
3062194--3062348	82	1.9	82	81	2	186	33	16	20	30	1.94
3065402--3065442	17	2.4	17	100	0	82	34	7	21	36	1.82
3066012--3066051	20	2.0	20	85	0	53	22	30	22	25	1.99
3072161--3072207	13	3.6	13	91	0	76	34	12	6	46	1.67
3072669--3072724	28	1.9	29	82	13	71	17	1	21	58	1.47
3079520--3079566	13	3.6	13	88	0	67	34	14	4	46	1.64
3096846--3096918	26	2.8	26	74	10	78	41	12	1	45	1.50
3096929--3096989	32	1.9	32	96	0	113	37	18	11	32	1.86
3097398--3097536	71	2.0	71	89	0	215	42	17	17	22	1.89
3100196--3100255	31	1.9	31	93	0	102	40	6	10	43	1.64
3100717--3100778	18	3.2	20	78	19	62	61	0	1	37	1.06
3100793--3100876	39	2.2	40	81	14	106	57	1	0	41	1.06
3100770--3100927	63	2.5	63	90	6	243	58	2	0	39	1.12
3100837--3100901	24	2.5	27	85	12	91	55	1	0	43	1.09
3104431--3104485	26	2.1	26	100	0	110	41	3	43	10	1.57
3115655--3115688	12	2.8	12	100	0	68	44	8	23	23	1.81
3124509--3124550	19	2.2	19	87	8	59	33	7	19	40	1.78
3129066--3129113	22	2.2	22	84	0	60	31	12	16	39	1.86
3136651--3136702	25	2.0	26	82	14	63	46	13	13	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137233--3137344	24	4.7	24	74	6	93	44	16	12	25	1.83
3144377--3144476	34	2.9	35	79	5	105	36	9	13	42	1.75
3144402--3144456	10	5.0	11	72	14	51	38	7	12	41	1.71
3150134--3150187	27	2.0	27	82	17	67	33	3	11	51	1.55
3151243--3151316	17	4.3	17	79	5	78	39	8	12	40	1.72
3152891--3152976	22	3.9	22	77	11	95	34	27	17	19	1.95
3152918--3152987	20	3.3	20	79	11	86	32	28	18	20	1.96
3152893--3152988	43	2.2	43	92	1	156	32	29	18	19	1.96
3165842--3165890	18	2.7	18	90	0	80	40	16	18	24	1.90
3168510--3168541	15	2.0	17	88	11	50	6	6	25	62	1.42
3179914--3179961	19	2.8	16	77	17	51	31	14	12	41	1.83
3179952--3179994	16	2.9	15	83	10	54	32	6	18	41	1.77
3179952--3179994	14	2.9	15	80	10	52	32	6	18	41	1.77
3180072--3180171	23	4.4	23	80	1	112	17	24	24	35	1.95
3180071--3180168	46	2.2	45	85	5	126	17	24	22	35	1.95
3180162--3180207	24	1.9	24	86	0	65	19	23	21	34	1.96
3180327--3180352	2	13.0	2	100	0	52	50	0	0	50	1.00
3186630--3186695	19	4.1	16	68	16	55	22	16	15	45	1.85
3186736--3186789	22	2.4	22	81	3	63	16	25	24	33	1.96
3207027--3207081	23	2.4	23	80	17	62	21	14	16	47	1.82
3208341--3208737	115	3.4	116	91	2	622	33	34	14	18	1.90
3209671--3209861	29	6.6	29	72	4	109	46	17	4	31	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3215842--3216166	117	2.9	115	87	7	474	32	33	14	18	1.92
3217107--3217175	29	2.4	29	82	0	84	50	13	5	30	1.64
3221229--3221272	22	2.0	24	82	13	58	43	4	4	47	1.44
3221591--3221673	16	5.3	16	67	11	55	45	28	15	9	1.78
3222401--3222433	16	2.2	16	89	10	52	27	30	21	21	1.98
3223711--3223736	2	13.0	2	100	0	52	50	0	0	50	1.00
3223784--3223808	2	12.5	2	100	0	50	52	48	0	0	1.00
3223808--3223833	2	13.0	2	100	0	52	50	0	0	50	1.00
3224722--3224751	16	1.9	15	93	6	51	13	26	40	20	1.89
3224910--3224960	4	12.8	4	76	15	52	68	0	5	25	1.12
3224915--3224960	16	2.8	16	87	12	67	67	0	6	26	1.15
3224976--3225272	33	8.5	33	77	13	215	48	7	2	41	1.45
3225015--3225270	34	7.3	36	77	15	202	47	7	2	42	1.43
3224986--3225273	71	4.1	70	80	9	277	47	7	2	42	1.44
3225037--3225339	71	4.3	68	78	13	201	46	7	2	42	1.47
3227745--3227822	24	3.3	24	87	3	113	50	10	2	37	1.50
3227755--3227788	17	2.0	17	88	0	50	52	11	5	29	1.61
3227774--3227822	6	8.2	6	81	0	53	51	10	0	38	1.36
3227757--3227822	12	5.6	12	76	3	62	51	12	1	34	1.48
3230681--3231606	200	4.7	198	88	2	1261	31	15	12	41	1.84
3230681--3231606	398	2.3	396	87	2	1338	31	15	12	41	1.84
3238323--3238375	16	3.1	16	70	15	52	41	13	1	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3238949--3239593	178	3.6	178	84	7	796	27	13	13	45	1.81
3239387--3239420	18	1.9	18	88	5	52	32	8	14	44	1.76
3238949--3239593	177	3.6	177	83	8	776	27	13	13	45	1.81
3241564--3241592	2	15.0	2	92	7	51	48	0	0	51	1.00
3241989--3242023	17	2.0	18	94	5	63	40	17	8	34	1.80
3249950--3250052	53	1.9	53	92	0	170	28	18	17	35	1.94
3251816--3251861	20	2.3	20	92	7	76	34	15	8	41	1.78
3260136--3260169	16	2.1	17	88	5	52	20	17	11	50	1.77
3260156--3260222	32	2.1	31	83	2	80	28	13	11	46	1.79
3260156--3260208	16	3.3	16	75	0	52	24	13	15	47	1.81

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