genome.fa.s8029.2.7.7.80.10.50.1000.14.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

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

This is table  14  of  18  ( 2124 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)
2767327--2767377	17	3.1	17	77	11	61	43	11	9	35	1.75
2767483--2767516	12	2.8	12	95	0	59	32	11	8	47	1.71
2768498--2768596	33	3.0	33	92	1	155	46	14	7	32	1.71
2768591--2768632	21	2.0	21	95	0	75	47	7	14	30	1.71
2781565--2781618	27	2.0	27	96	0	99	27	14	16	40	1.88
2791837--2791880	21	2.1	21	91	0	70	43	13	4	38	1.65
2800653--2800698	12	3.8	12	82	0	56	34	21	23	19	1.96
2804289--2804327	19	2.1	19	90	0	60	41	17	7	33	1.79
2804839--2804865	4	6.8	4	100	0	54	74	0	0	25	0.83
2806922--2806946	13	1.9	13	100	0	50	68	0	32	0	0.90
2812007--2812057	23	2.2	24	79	10	61	72	7	3	15	1.23
2814947--2814978	2	16.0	2	93	0	55	46	0	0	53	1.00
2824368--2824421	27	2.0	27	100	0	108	22	14	14	48	1.81
2856102--2856149	19	2.5	19	96	0	87	25	25	31	18	1.98
2861157--2861190	2	17.0	2	93	0	59	47	0	2	50	1.16
2863679--2863834	65	2.4	64	74	13	149	33	21	17	26	1.96
2864741--2864818	23	3.3	23	81	1	93	24	20	23	32	1.98
2869105--2869172	34	2.0	34	85	5	93	25	7	25	42	1.80
2871523--2871598	35	2.2	35	90	0	116	39	22	1	36	1.63
2872001--2872243	131	1.9	131	91	0	405	35	15	13	35	1.86
2872570--2872632	28	2.3	27	78	8	63	46	1	3	49	1.27
2872712--2872745	16	2.0	18	88	11	54	64	5	2	26	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2874548--2874582	10	3.5	10	92	0	61	65	17	5	11	1.43
2879377--2879421	20	2.2	20	96	0	81	60	15	15	8	1.59
2879355--2879397	16	2.9	15	93	6	70	48	11	23	16	1.78
2883852--2883952	51	2.0	51	94	0	175	35	13	19	30	1.91
2885712--2885755	14	2.9	15	86	6	63	45	13	25	15	1.83
2887415--2887464	24	2.1	24	96	0	91	6	32	24	38	1.79
2892759--2892807	23	2.1	23	84	0	62	57	6	2	34	1.35
2894416--2894460	23	1.9	23	82	13	56	40	17	22	20	1.92
2897827--2897856	14	2.1	14	93	0	51	0	16	3	80	0.85
2899937--2900025	21	4.2	21	68	5	63	29	12	19	39	1.88
2900038--2900095	21	2.7	21	81	5	62	18	15	29	36	1.92
2901711--2901759	20	2.4	21	77	16	59	53	8	10	28	1.63
2904231--2904260	6	4.8	6	92	8	51	46	16	20	16	1.84
2904231--2904260	13	2.4	12	94	5	51	46	16	20	16	1.84
2904895--2904938	20	2.2	20	100	0	88	31	29	18	20	1.96
2923963--2924004	20	2.1	20	90	0	66	35	21	9	33	1.86
2925235--2925289	14	3.9	14	76	4	56	32	20	21	25	1.97
2926698--2926752	6	9.2	6	83	13	69	80	0	0	20	0.72
2926704--2926753	12	4.0	13	87	7	77	78	0	0	22	0.76
2926698--2926749	25	2.1	25	89	7	79	80	0	0	19	0.71
2927240--2927572	121	2.7	122	87	2	447	25	13	22	38	1.90
2927617--2927864	137	1.8	137	87	1	363	23	18	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2930133--2930182	22	2.3	22	83	13	68	50	4	22	24	1.66
2932863--2932926	23	2.8	22	78	4	65	28	25	25	21	1.99
2932942--2933159	103	2.1	103	99	0	427	37	25	13	24	1.92
2933492--2933652	64	2.5	62	80	8	171	27	20	17	34	1.95
2934173--2934199	11	2.5	11	100	0	54	62	0	37	0	0.95
2939722--2939785	23	2.8	22	72	9	65	26	23	26	23	2.00
2939822--2940009	96	2.0	96	96	0	349	39	25	13	22	1.90
2940317--2940444	64	2.0	67	90	7	210	26	19	19	34	1.96
2940329--2940470	64	2.2	64	85	8	182	27	20	16	35	1.94
2941985--2942241	128	2.0	128	100	0	514	27	13	23	36	1.92
2952876--2952940	32	2.0	32	93	0	112	43	6	3	47	1.43
2957255--2957299	18	2.5	18	85	7	65	2	8	6	82	0.93
2959760--2959809	26	2.0	26	85	11	70	34	0	0	66	0.92
2960022--2960096	22	3.5	21	74	15	64	50	10	2	36	1.51
2960843--2960871	14	2.1	14	93	6	51	44	13	17	24	1.85
2967030--2967217	60	3.2	60	75	9	197	41	4	20	33	1.72
2968274--2968338	23	2.8	23	86	4	78	30	26	15	27	1.96
2973992--2974078	37	2.4	37	94	0	147	27	18	14	39	1.90
2973987--2974246	97	2.6	100	85	6	348	31	16	13	37	1.88
2974096--2974177	37	2.2	37	91	0	128	31	18	13	36	1.89
2974244--2974517	139	2.0	139	85	2	372	30	25	15	28	1.96
2974821--2974875	3	17.7	3	78	14	58	32	1	0	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974821--2974875	21	2.7	21	91	5	87	32	1	0	65	1.03
2976684--2976735	12	4.5	11	74	11	50	15	1	0	82	0.75
2976684--2976734	11	4.5	11	78	11	50	15	1	0	82	0.76
2977993--2978094	32	3.2	32	91	0	159	58	22	3	14	1.52
2978001--2978094	21	4.4	22	86	5	129	59	20	4	15	1.53
2978001--2978094	11	8.7	11	83	4	120	59	20	4	15	1.53
2978202--2978698	36	13.8	36	91	0	706	18	25	24	31	1.98
2980035--2980081	11	4.4	11	78	5	51	59	17	4	19	1.53
2980315--2980355	2	20.5	2	100	0	82	51	0	0	48	1.00
2982830--2982891	24	2.6	24	74	2	63	46	3	1	48	1.28
2989011--2989118	49	2.2	49	77	9	112	25	19	19	36	1.95
2992515--2992568	18	2.9	18	94	2	90	48	11	9	31	1.70
2995440--2995479	21	1.9	22	90	10	66	12	10	40	37	1.77
3002698--3002736	20	2.0	20	89	0	60	33	10	23	33	1.88
3017999--3018037	18	2.2	18	86	4	53	17	10	0	71	1.12
3025357--3025411	18	3.1	18	92	5	85	16	9	5	69	1.34
3033878--3033940	19	3.3	19	93	2	99	33	23	11	31	1.90
3034890--3034943	24	2.2	24	96	0	99	20	16	20	42	1.89
3037514--3037555	20	2.1	20	100	0	84	14	21	26	38	1.91
3038056--3038092	18	2.1	18	94	0	65	35	5	8	51	1.55
3038221--3038391	83	2.1	83	90	0	270	33	19	18	28	1.96
3039284--3039442	64	2.4	65	86	4	232	50	15	1	32	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3040796--3040871	21	3.6	21	78	7	91	23	21	31	23	1.98
3043028--3043130	20	5.2	20	95	1	172	45	24	19	10	1.82
3043516--3043566	22	2.3	21	93	6	84	23	17	41	17	1.90
3043721--3043791	20	3.6	19	81	14	74	18	12	22	46	1.82
3046798--3046844	21	2.2	21	84	0	67	19	27	17	36	1.93
3046825--3046965	41	3.5	40	74	10	108	30	19	18	31	1.95
3046797--3047005	20	10.3	20	77	9	131	28	20	18	33	1.96
3047865--3047918	24	2.2	24	93	0	90	20	18	20	40	1.91
3048109--3048144	14	2.5	14	90	4	54	58	22	13	5	1.56
3049373--3050042	335	2.0	335	98	0	1295	34	16	17	31	1.92
3050760--3050814	19	2.8	19	83	2	65	38	21	21	18	1.94
3050805--3050859	14	3.6	14	73	21	56	45	20	23	10	1.82
3050787--3050913	33	3.8	33	95	0	227	44	18	24	12	1.84
3050767--3050917	19	8.7	18	68	22	92	43	19	24	12	1.85
3050913--3051007	19	5.3	19	80	14	96	12	16	24	46	1.82
3050928--3050991	33	1.9	33	90	6	103	9	15	25	50	1.74
3050972--3051015	19	2.3	19	88	0	61	15	20	18	45	1.85
3052484--3052550	21	3.2	21	68	4	55	19	20	35	23	1.95
3053003--3053126	19	6.6	19	73	12	105	47	20	20	11	1.80
3053065--3053154	33	2.7	33	92	0	144	46	21	21	11	1.81
3053181--3053242	20	3.2	20	81	4	81	11	22	14	51	1.74
3053335--3053636	94	3.2	93	95	0	532	48	19	11	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3053546--3053698	78	1.9	79	90	5	245	43	18	13	24	1.85
3055425--3055495	20	3.9	19	68	19	62	12	23	21	42	1.87
3057108--3057141	9	3.7	9	92	4	50	23	0	0	76	0.79
3057111--3057142	14	2.2	15	94	5	57	25	0	0	75	0.81
3059367--3059438	30	2.4	30	86	6	101	58	6	2	31	1.39
3061366--3061392	8	3.4	8	100	0	54	22	0	0	77	0.76
3061725--3061757	2	17.5	2	87	12	52	51	0	0	48	1.00
3067221--3067251	15	2.1	15	93	0	53	45	0	0	54	0.99
3072034--3072068	3	11.0	3	93	6	52	31	0	0	68	0.90
3072954--3073002	21	2.3	21	89	0	71	30	14	18	36	1.90

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