genome.fa.s8087.2.7.7.80.10.50.1000.13.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  13  of  37  ( 4336 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)
2845686--2845728	20	2.2	20	100	0	86	23	34	0	41	1.55
2858408--2858433	2	13.0	2	100	0	52	50	0	0	50	1.00
2869976--2870006	16	1.9	16	93	0	53	67	0	9	22	1.19
2873193--2873240	25	1.9	25	83	8	62	47	2	2	47	1.25
2876246--2876292	24	2.0	24	95	0	85	17	8	36	38	1.80
2891313--2891347	2	17.5	2	100	0	70	51	0	48	0	1.00
2898425--2898500	30	2.6	29	80	10	84	57	0	6	35	1.25
2899948--2900015	33	2.2	32	86	7	95	41	0	0	58	0.98
2900162--2900215	17	3.2	16	78	2	54	37	0	3	59	1.15
2901751--2901792	21	2.0	20	90	4	66	28	42	7	21	1.79
2901802--2901912	21	5.3	21	82	8	145	19	31	26	22	1.98
2901804--2901912	42	2.6	42	94	0	182	19	32	25	22	1.97
2902433--2902539	34	3.1	34	78	5	117	57	6	2	32	1.39
2902934--2903550	128	4.7	128	92	2	955	34	22	22	21	1.97
2903631--2903671	8	5.2	8	82	5	57	36	29	0	34	1.58
2911378--2911403	2	13.0	2	100	0	52	50	0	0	50	1.00
2917807--2917853	18	2.8	17	87	6	69	34	6	29	29	1.82
2918403--2918475	38	2.0	37	89	10	116	43	34	9	12	1.75
2918660--2918732	38	1.9	37	91	2	119	41	34	10	13	1.80
2918363--2918928	246	2.3	244	93	2	983	37	25	12	25	1.90
2918683--2919188	208	2.4	209	87	6	736	36	26	12	23	1.91
2928536--2928659	62	2.0	62	100	0	248	20	17	16	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2945285--2945342	19	2.8	21	84	10	66	22	34	25	17	1.96
2945306--2945349	19	2.3	19	84	4	52	22	31	31	13	1.93
2947612--2947653	21	2.0	21	95	0	75	35	0	26	38	1.57
2951113--2951196	43	2.0	43	90	0	132	39	15	26	19	1.91
2951645--2951703	25	2.3	25	80	16	68	38	0	0	61	0.96
2954237--2954315	34	2.2	37	80	14	96	50	0	0	49	1.00
2954226--2954315	40	2.3	40	90	3	139	50	0	0	50	1.00
2974722--2974748	7	3.9	7	100	0	54	0	25	29	44	1.54
2975330--2975376	21	2.2	20	82	10	58	72	4	2	21	1.12
2979538--2979668	59	2.2	59	84	8	169	39	13	12	34	1.82
2979625--2979713	45	2.0	45	86	0	124	43	15	10	30	1.80
2984652--2984689	20	1.9	20	94	0	67	44	10	23	21	1.83
2984652--2984695	20	2.3	19	88	7	63	45	9	25	20	1.80
2984903--2984947	22	2.0	22	91	0	72	46	2	0	51	1.13
2986082--2986124	19	2.2	20	80	12	54	51	11	16	20	1.75
2988723--2988761	2	19.5	2	100	0	78	48	0	0	51	1.00
2994553--2994712	86	1.9	87	89	1	250	33	23	16	26	1.96
2997352--2997386	18	1.9	18	88	0	52	28	17	0	54	1.43
2998675--2998708	7	4.7	7	85	7	50	23	26	32	17	1.97
2998676--2998706	15	2.1	15	93	0	53	25	22	35	16	1.94
2998705--2998779	18	4.4	18	77	16	97	13	18	49	18	1.79
2998683--2998726	13	3.3	13	84	12	54	18	25	40	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998698--2998770	31	2.4	31	88	2	112	16	20	45	17	1.86
3002561--3002595	18	1.9	18	88	0	52	28	17	0	54	1.43
3003883--3003916	7	4.7	7	85	7	50	23	26	32	17	1.97
3003884--3003914	15	2.1	15	93	0	53	25	22	35	16	1.94
3003913--3003987	18	4.4	18	77	16	97	13	18	49	18	1.79
3003891--3003934	13	3.3	13	84	12	54	18	25	40	15	1.90
3003906--3003978	31	2.4	31	88	2	112	16	20	45	17	1.86
3010145--3010357	104	2.0	104	99	0	417	37	18	5	38	1.74
3027943--3028163	109	2.0	109	89	3	338	41	10	12	36	1.77
3029250--3029286	19	2.0	18	89	5	56	40	2	0	56	1.13
3033725--3033801	37	2.1	37	85	4	102	48	1	3	46	1.28
3037681--3037714	17	1.9	18	88	5	52	67	0	5	26	1.13
3056091--3056124	2	17.0	2	100	0	68	50	0	0	50	1.00
3056289--3056529	21	11.7	20	78	11	231	24	20	15	39	1.91
3056260--3056540	41	6.8	40	80	9	211	25	21	15	37	1.92
3056266--3056530	62	4.3	62	80	12	255	24	21	15	38	1.92
3056289--3056529	103	2.3	103	86	6	328	24	20	15	39	1.91
3057402--3057448	24	1.9	24	91	4	76	25	21	17	36	1.94
3059962--3060016	19	2.8	19	83	2	65	38	21	21	18	1.94
3060007--3060063	14	3.7	14	72	20	51	42	21	26	10	1.85
3059989--3060067	33	2.4	33	95	0	140	43	20	25	11	1.85
3059969--3060047	19	4.4	19	75	16	78	43	20	22	13	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060073--3060152	33	2.4	33	89	0	115	10	20	21	48	1.78
3060092--3060152	19	3.5	19	70	21	60	11	22	19	45	1.82
3060258--3060294	14	2.6	14	91	0	65	45	21	0	32	1.52
3062267--3062304	20	1.9	20	94	0	67	7	15	26	50	1.72
3062288--3062371	33	2.5	33	88	0	132	7	20	23	48	1.74
3062308--3062396	19	4.9	18	76	18	87	8	21	20	49	1.76
3062485--3062857	94	4.1	94	88	6	543	46	18	12	22	1.82
3062485--3062857	185	2.0	182	88	7	549	46	18	12	22	1.82
3064544--3064642	19	5.1	19	87	4	144	45	19	23	12	1.83
3064638--3064689	20	2.7	20	78	3	61	11	17	25	46	1.81
3065255--3065305	20	2.5	20	83	3	57	35	17	23	23	1.95
3075731--3075765	11	3.2	11	91	0	52	57	0	2	40	1.14
3077382--3077459	3	25.3	3	76	5	75	60	1	2	35	1.19
3077584--3078068	45	10.8	45	96	0	835	34	19	24	22	1.96
3077871--3077942	20	3.3	20	66	23	56	31	18	27	22	1.97
3078331--3078379	22	2.2	22	96	0	89	38	16	12	32	1.86
3078690--3078770	3	26.3	3	77	5	81	60	1	2	35	1.18
3079325--3079362	20	1.9	20	94	0	67	52	18	26	2	1.58
3079325--3079360	10	3.6	10	84	0	54	52	19	25	2	1.59
3089847--3089896	21	2.5	20	80	6	55	48	4	2	46	1.32
3094403--3094820	211	2.0	210	89	1	640	33	24	9	33	1.87
3096518--3096574	14	4.4	14	76	17	59	8	12	24	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096519--3096593	24	3.1	24	88	3	98	12	10	21	56	1.66
3097317--3097383	16	4.3	16	92	3	102	10	10	19	59	1.58
3097315--3097375	32	1.9	32	96	0	113	8	13	22	55	1.64
3097445--3097477	16	2.1	16	94	0	57	6	9	24	60	1.49
3109684--3109735	7	7.3	7	87	12	79	86	0	0	13	0.57
3109682--3109732	22	2.3	22	93	6	86	86	0	0	13	0.58
3110000--3110044	21	2.1	21	87	0	63	46	4	6	42	1.50
3110007--3110069	21	3.0	21	88	0	90	36	3	14	46	1.61
3111500--3112122	211	2.9	211	91	4	1022	30	12	15	41	1.84
3112731--3112830	18	5.6	18	93	1	157	28	28	7	37	1.83
3116801--3116859	29	2.0	29	100	0	118	23	13	13	49	1.78
3121478--3121547	29	2.4	29	85	4	79	30	15	11	42	1.82
3121491--3121549	29	2.0	29	93	0	100	23	13	13	49	1.78
3121874--3122022	66	2.3	66	82	4	176	23	42	6	27	1.79
3121939--3121982	21	2.1	21	82	0	52	27	43	4	25	1.74
3125517--3125582	33	2.1	31	86	8	89	36	24	15	24	1.93
3127491--3127536	21	2.1	22	84	4	58	19	30	19	30	1.97
3130266--3130331	33	2.1	31	83	8	80	37	24	13	24	1.91
3131330--3131407	21	3.7	21	73	0	75	20	5	51	23	1.67
3131427--3131498	21	3.5	20	80	19	76	25	4	51	19	1.64
3131506--3131546	21	2.0	21	85	0	55	29	0	46	24	1.53
3131571--3131727	21	7.1	21	75	13	95	22	7	43	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3131664--3132029	24	16.0	23	66	13	114	24	10	42	22	1.84
3131559--3131935	45	8.4	45	77	9	286	23	8	44	22	1.81
3139946--3139989	21	2.1	21	86	0	61	25	0	50	25	1.50
3140065--3140432	45	8.1	45	88	1	511	20	10	47	21	1.79
3145808--3145892	2	43.0	2	97	2	163	49	0	0	50	1.00
3151561--3151976	45	9.1	45	89	2	580	21	10	46	21	1.81
3154920--3155272	170	2.1	170	79	6	376	28	13	32	25	1.94
3157360--3157422	26	2.4	26	91	0	99	26	20	7	44	1.79
3170824--3170860	19	1.9	19	94	0	65	32	29	16	21	1.95
3170946--3171265	41	7.8	41	95	1	536	33	26	16	23	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37