genome.fa.s426.2.7.7.80.10.50.1000.14.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

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

This is table  14  of  15  ( 1749 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)
2939722--2939875	80	1.9	80	82	0	191	36	9	17	37	1.82
2952585--2952645	3	21.0	3	77	12	56	27	4	1	65	1.22
2952578--2952640	29	2.2	30	85	8	94	25	6	3	65	1.32
2959861--2959906	4	12.2	4	82	13	62	52	21	0	26	1.47
2959869--2959904	18	2.1	17	94	5	63	52	22	0	25	1.47
2960353--2960585	104	2.3	102	82	12	273	31	19	12	36	1.89
2960536--2960655	36	3.4	36	79	6	113	30	20	12	35	1.90
2960860--2960905	24	2.0	23	82	4	56	28	13	4	54	1.57
2960909--2961039	57	2.3	58	85	4	167	29	12	16	41	1.84
2960901--2961065	29	5.8	28	80	7	181	29	12	16	41	1.85
2961114--2961177	30	2.1	30	94	0	110	35	9	14	40	1.78
2961131--2961315	67	2.9	64	77	10	205	30	14	12	42	1.83
2961472--2961546	35	2.1	36	85	7	100	36	18	10	34	1.86
2961819--2961872	28	1.9	28	85	7	74	22	16	16	44	1.86
2961986--2962196	46	4.9	45	75	11	192	25	30	19	24	1.98
2961884--2962279	129	3.1	129	87	3	600	23	30	19	26	1.98
2961936--2962396	40	10.9	40	71	15	184	22	30	19	27	1.98
2961884--2962224	86	4.0	86	70	16	242	24	29	19	26	1.99
2961884--2962279	128	3.1	128	88	3	607	23	30	19	26	1.98
2961903--2962208	46	7.1	46	67	15	161	24	29	19	26	1.98
2961974--2962389	43	9.8	43	73	11	250	23	30	19	26	1.98
2961903--2962382	83	5.7	83	75	13	343	22	29	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2962548--2962608	3	21.0	3	77	12	56	27	4	1	65	1.22
2962541--2962603	29	2.2	30	85	8	94	25	6	3	65	1.32
2971214--2971525	64	4.9	64	80	7	292	31	16	18	33	1.93
2986967--2987014	20	2.4	20	92	0	78	14	16	4	64	1.43
2988991--2989060	24	2.9	24	82	0	68	14	10	17	58	1.62
2989069--2989151	39	2.1	39	86	8	116	48	1	16	33	1.55
2994454--2994484	15	2.1	15	100	0	62	22	12	19	45	1.84
2994936--2994970	16	2.2	16	100	0	70	42	5	11	40	1.65
2995439--2995526	42	2.1	42	82	4	106	28	19	19	32	1.96
2995449--2995574	43	3.0	42	79	2	117	28	23	15	32	1.95
2996838--2996888	20	2.5	20	84	6	68	41	11	15	31	1.83
2997515--2997549	9	3.9	9	84	0	52	60	22	0	17	1.37
2997508--2997548	18	2.3	18	91	0	64	63	19	2	14	1.41
3000485--3000555	30	2.4	30	97	0	133	52	14	8	25	1.69
3004120--3004151	9	3.6	9	95	0	55	34	9	25	31	1.87
3006860--3006943	38	2.2	37	80	17	102	58	5	7	28	1.48
3006936--3006965	13	2.2	14	94	5	53	73	6	0	20	1.05
3009178--3009226	15	3.4	15	76	15	50	69	0	0	30	0.89
3009180--3009226	13	3.5	13	78	21	51	68	0	0	31	0.90
3010253--3010605	175	2.0	175	100	0	706	40	6	22	30	1.78
3021568--3021706	40	3.5	39	88	4	197	43	7	14	35	1.73
3021568--3021723	40	3.8	39	84	7	188	44	6	14	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023735--3023780	19	2.4	19	100	0	92	10	10	10	67	1.43
3027173--3028804	84	19.7	83	78	6	1574	29	25	20	24	1.99
3027173--3028804	165	9.9	164	82	5	1606	29	25	20	24	1.99
3027173--3028804	249	6.6	248	87	3	2114	29	25	20	24	1.99
3030142--3030280	40	3.5	39	88	4	197	43	7	14	35	1.73
3030142--3030297	40	3.8	39	84	7	188	44	6	14	33	1.71
3030972--3030996	12	2.1	12	100	0	50	32	20	8	40	1.81
3034702--3034792	30	3.3	29	83	11	111	10	7	20	60	1.55
3034740--3034803	29	2.2	30	82	2	76	17	6	18	57	1.60
3034839--3034885	12	3.9	12	75	10	51	23	10	17	48	1.77
3034817--3034882	24	2.8	25	86	6	93	24	12	18	45	1.83
3034881--3034982	23	4.4	23	88	0	150	18	12	24	44	1.85
3034875--3034982	46	2.3	46	98	0	207	18	12	24	44	1.85
3038639--3038686	16	3.0	16	100	0	96	18	18	6	56	1.62
3040007--3040341	42	7.9	42	88	3	413	12	26	25	35	1.92
3043564--3043741	92	1.9	93	84	1	241	29	14	17	37	1.90
3046761--3046840	32	2.5	32	85	0	106	35	21	15	28	1.93
3046812--3046914	51	2.0	51	96	0	188	39	13	19	27	1.89
3047175--3047362	51	3.7	51	86	8	274	23	11	16	47	1.79
3048035--3048150	21	5.6	21	69	10	60	32	27	18	21	1.96
3048138--3048330	20	9.6	20	84	5	246	34	27	19	18	1.95
3048710--3048780	33	2.2	33	94	0	124	11	23	16	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3048860--3048936	21	3.7	21	82	6	102	46	16	22	14	1.83
3048956--3049006	19	2.7	19	87	0	75	13	19	19	47	1.83
3048975--3049069	41	2.6	37	82	15	117	9	25	17	47	1.78
3049005--3049069	21	3.1	21	78	12	89	9	26	15	49	1.74
3050754--3051069	93	3.4	93	98	0	614	22	13	18	44	1.85
3051185--3051241	14	3.7	14	72	20	51	43	24	22	8	1.81
3051199--3051290	19	5.4	18	72	24	65	46	28	17	7	1.75
3051167--3051290	33	3.7	33	91	1	185	45	27	17	8	1.78
3051216--3051274	14	3.9	14	76	20	64	47	28	16	6	1.72
3051286--3051458	19	9.6	19	76	12	159	10	20	23	45	1.81
3051308--3051364	14	3.7	14	75	20	51	10	22	22	43	1.84
3051286--3051458	33	4.8	38	80	8	168	10	20	23	45	1.81
3053382--3053431	14	3.6	14	97	0	91	36	0	22	42	1.54
3053538--3053636	20	5.4	19	84	12	136	45	17	23	14	1.84
3053538--3053654	54	2.2	53	96	3	218	43	17	24	13	1.86
3053645--3053853	19	11.7	19	80	16	259	14	22	17	45	1.85
3053722--3053867	33	4.2	33	81	13	195	13	21	18	46	1.83
3053651--3053867	105	2.1	103	88	10	316	13	22	17	46	1.84
3056152--3056176	12	2.1	12	100	0	50	0	28	0	72	0.86
3056351--3056397	24	2.0	24	87	8	69	38	21	14	25	1.92
3057090--3057298	20	10.4	20	84	4	206	19	18	25	36	1.94
3058076--3058137	30	2.1	30	87	0	88	22	27	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3065079--3065114	2	18.0	2	100	0	72	50	0	0	50	1.00
3065649--3065706	28	2.1	28	84	12	75	39	0	15	44	1.47
3068771--3068896	20	6.4	20	85	2	114	48	23	14	14	1.80
3068771--3068896	38	3.2	38	77	6	128	48	23	14	14	1.80
3068834--3068896	19	3.3	19	93	4	101	46	23	17	12	1.83
3069282--3069324	22	2.0	22	90	9	70	18	16	39	25	1.91
3069499--3069617	20	5.9	20	90	0	184	25	21	26	26	1.99
3069499--3069656	60	2.6	60	81	2	165	25	20	24	29	1.99
3082458--3082514	25	2.3	25	100	0	114	38	3	22	35	1.72
3083160--3083185	2	13.0	2	100	0	52	50	0	50	0	1.00
3084653--3084735	33	2.6	32	83	9	107	40	0	0	59	0.98
3084659--3084714	25	2.2	26	96	3	105	39	0	0	60	0.97
3086761--3086836	29	2.6	29	82	16	86	34	5	9	51	1.56
3090031--3090065	17	2.1	17	100	0	70	51	11	25	11	1.71
3092079--3092432	83	4.3	83	89	5	569	31	2	18	47	1.63
3092109--3092432	84	4.1	78	89	5	449	32	2	18	45	1.63
3092086--3092409	159	2.0	152	89	8	486	32	2	18	46	1.61
3092540--3092585	21	2.2	21	85	11	60	17	19	8	54	1.68
3093458--3093502	2	22.5	2	100	0	90	48	0	0	51	1.00
3093610--3093641	16	2.0	16	100	0	64	56	18	12	12	1.67
3094570--3094616	2	24.0	2	86	4	69	51	4	0	44	1.21
3104038--3104072	18	1.9	18	88	11	54	31	5	5	57	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104403--3104562	65	2.5	65	87	5	218	30	25	16	28	1.96
3104403--3104582	65	2.8	63	82	9	159	30	25	16	28	1.96
3104628--3104676	21	2.3	21	100	0	98	20	24	24	30	1.98
3104811--3104844	13	2.6	13	100	0	68	70	14	14	0	1.17
3106266--3106361	31	3.1	31	95	0	174	21	17	22	37	1.94
3106993--3107028	18	1.9	19	88	5	56	47	5	2	44	1.41
3106985--3107095	13	7.9	13	75	16	89	47	5	3	43	1.43
3106985--3107094	28	3.9	26	75	17	96	47	5	3	43	1.44
3106985--3107095	43	2.7	40	78	16	102	47	5	3	43	1.43
3107382--3107461	17	4.9	17	72	16	53	51	2	5	41	1.37

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