genome.fa.s8826.2.7.7.80.10.50.1000.14.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

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  ( 2089 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)
3059548--3059622	29	2.5	31	87	8	111	30	26	25	17	1.97
3059523--3059601	19	4.2	18	75	16	79	27	29	27	15	1.96
3065745--3065802	23	2.6	21	80	17	64	27	29	20	22	1.99
3069131--3069366	117	2.0	115	87	1	337	23	23	16	36	1.94
3069279--3069620	91	3.8	90	88	3	492	24	24	14	35	1.93
3072473--3072839	181	2.0	181	97	0	689	38	11	20	28	1.89
3072973--3073020	19	2.6	18	83	9	60	4	16	0	79	0.89
3072973--3073082	33	3.4	32	71	12	91	6	19	1	72	1.15
3072985--3073082	23	4.5	22	71	15	62	6	19	2	72	1.16
3073317--3073512	2	98.0	2	90	0	257	44	2	5	47	1.38
3078018--3078043	2	13.0	2	100	0	52	50	0	0	50	1.00
3078555--3078597	3	14.7	3	85	4	61	60	0	0	39	0.97
3078555--3078598	9	5.0	9	91	5	72	59	0	0	40	0.98
3081106--3082344	633	1.9	639	88	3	1877	36	15	11	37	1.83
3087332--3087394	27	2.4	26	78	5	81	30	7	9	52	1.62
3094910--3094944	2	17.5	2	100	0	70	51	0	0	48	1.00
3094961--3095183	111	2.0	112	97	0	421	33	20	18	27	1.96
3095913--3095942	2	15.0	2	100	0	60	50	0	0	50	1.00
3096087--3096146	30	2.0	30	96	0	111	30	13	28	28	1.94
3097245--3097316	35	2.1	35	89	5	110	34	9	15	40	1.80
3098064--3098115	21	2.5	21	81	3	61	38	19	25	17	1.93
3098104--3098218	20	5.7	20	75	9	99	33	23	18	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3098386--3098429	22	2.0	22	91	8	72	22	45	13	18	1.84
3098386--3098437	22	2.5	21	84	12	63	23	44	11	21	1.84
3098671--3098734	20	3.2	20	77	0	65	18	18	18	43	1.88
3100045--3100089	18	2.5	18	88	0	72	26	44	15	13	1.83
3100571--3100637	20	3.4	20	81	2	73	38	23	22	14	1.92
3100610--3100672	18	3.7	18	75	18	71	42	20	20	15	1.89
3100691--3100746	20	2.8	19	84	7	67	16	23	23	37	1.93
3101112--3101172	21	3.0	20	71	7	59	22	42	11	22	1.86
3101111--3101198	40	2.1	42	85	4	126	22	40	14	21	1.90
3102613--3102649	14	2.6	14	91	0	56	32	0	21	45	1.52
3102732--3102770	20	2.0	20	94	0	69	46	30	10	12	1.75
3102776--3102840	19	3.7	19	84	15	95	46	18	21	13	1.84
3102866--3103014	20	7.6	20	94	2	266	16	24	24	33	1.96
3103996--3104042	24	2.0	24	91	0	76	29	19	17	34	1.94
3104229--3104253	12	2.1	12	100	0	50	72	0	28	0	0.86
3106545--3106671	33	3.8	33	83	4	175	44	18	21	15	1.87
3106546--3106678	66	2.0	66	92	0	221	42	18	21	17	1.89
3106686--3106742	14	3.7	14	75	20	60	8	24	22	43	1.81
3106671--3106757	33	2.6	33	92	0	147	13	21	20	43	1.87
3106867--3106903	14	2.6	14	91	0	65	45	24	0	29	1.53
3108260--3108465	42	4.9	41	72	9	155	22	17	36	22	1.94
3108260--3108326	21	3.2	21	68	4	55	19	20	35	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3108290--3108465	84	2.1	84	100	0	352	23	16	38	22	1.93
3108682--3108868	91	2.0	90	89	6	286	47	18	12	21	1.82
3109037--3109161	63	2.0	63	98	0	241	24	34	20	21	1.97
3110618--3110781	19	9.1	19	78	14	177	45	19	23	12	1.84
3110643--3110776	33	3.9	33	85	9	187	44	20	23	11	1.83
3110618--3110782	71	2.3	72	91	2	269	44	19	23	12	1.84
3110777--3110821	19	2.4	19	84	0	63	6	15	26	51	1.68
3111375--3111427	20	2.7	20	93	0	88	26	20	28	24	1.99
3111436--3111486	20	2.5	20	96	0	93	25	19	23	31	1.98
3111376--3111492	61	1.9	61	83	0	153	24	17	23	33	1.97
3111376--3111510	61	2.2	61	80	2	146	23	20	23	32	1.98
3111560--3111600	21	2.0	21	85	0	55	34	31	17	17	1.93
3112152--3112184	2	16.5	2	100	0	66	48	0	0	51	1.00
3113623--3113712	23	3.9	23	78	7	85	14	14	14	56	1.67
3113633--3113658	13	2.0	13	100	0	52	23	7	7	61	1.49
3113695--3113726	14	2.3	14	94	0	55	9	15	18	56	1.66
3114802--3114832	13	2.4	13	100	0	62	22	0	35	41	1.54
3115045--3115116	35	2.1	35	89	0	108	34	12	13	38	1.83
3115268--3115297	13	2.3	13	94	0	51	46	20	13	20	1.83
3120235--3120261	13	2.1	13	100	0	54	22	25	14	37	1.93
3123991--3124100	44	2.5	42	82	5	121	30	10	5	53	1.58
3124005--3124101	43	2.2	45	85	5	128	30	12	6	50	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127216--3127262	17	2.6	18	83	10	60	25	48	14	10	1.76
3127217--3127286	18	4.2	17	80	14	74	21	48	17	12	1.80
3127240--3127275	14	2.6	14	91	4	56	19	47	19	13	1.83
3128586--3128621	18	2.0	18	88	0	54	52	0	16	30	1.44
3129782--3129839	12	4.8	12	82	0	71	13	15	18	51	1.76
3129745--3129827	24	3.5	23	81	3	94	19	16	18	45	1.85
3131606--3131658	21	2.5	21	84	0	70	20	26	18	33	1.96
3131605--3131934	20	16.3	20	83	5	319	28	19	19	33	1.96
3131606--3131934	41	8.1	41	83	5	330	27	19	19	33	1.96
3131605--3131934	61	5.4	60	81	5	319	28	19	19	33	1.96
3135321--3135364	20	2.2	20	88	4	63	36	20	22	20	1.95
3135348--3135483	33	4.1	33	95	0	245	44	17	24	13	1.84
3135328--3135472	19	8.4	19	68	21	104	44	18	23	13	1.86
3135482--3135558	19	4.3	19	75	18	76	10	20	22	46	1.80
3135668--3135704	14	2.6	14	91	0	65	45	21	0	32	1.52
3137054--3137120	21	3.2	21	68	4	55	19	20	35	23	1.95
3137054--3137176	42	2.9	41	79	7	113	22	18	36	21	1.95
3137595--3137664	19	3.6	19	86	3	95	50	18	21	10	1.76
3137703--3137779	20	3.9	20	93	3	129	6	16	27	49	1.70
3137694--3137777	39	2.2	38	85	6	114	9	16	27	46	1.78
3137703--3137779	39	2.0	40	92	2	129	6	16	27	49	1.70
3137711--3137805	39	2.4	39	84	5	111	8	18	22	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137724--3137805	20	4.2	19	89	4	83	8	20	20	50	1.74
3137893--3138268	94	4.1	94	90	3	586	47	17	11	22	1.80
3139959--3140049	19	4.7	19	85	5	128	48	18	20	12	1.80
3140080--3140174	40	2.4	40	82	7	122	11	17	18	51	1.75
3140084--3140174	20	4.6	20	80	9	105	12	16	19	51	1.75
3140717--3140806	20	4.4	20	85	2	135	20	21	18	40	1.92
3140717--3140824	41	2.7	40	85	1	135	24	20	19	36	1.95
3140808--3140851	21	2.1	21	87	4	63	36	18	27	18	1.94
3141037--3141129	3	31.0	3	95	0	168	33	2	0	64	1.06
3161788--3161891	53	2.0	53	94	3	183	24	15	20	40	1.90
3164652--3164697	20	2.3	20	92	0	74	32	17	21	28	1.96
3168512--3168635	29	4.3	29	80	2	124	44	22	4	28	1.73
3168522--3168689	86	2.0	85	84	3	221	44	21	5	28	1.74
3168532--3168690	29	5.5	28	75	5	122	44	22	6	27	1.76
3175810--3175961	29	5.2	28	71	12	108	43	21	5	30	1.74
3177470--3177501	15	2.0	17	88	11	50	56	0	0	43	0.99
3178184--3178225	22	1.9	22	95	0	75	61	11	14	11	1.56
3179327--3179401	36	2.0	38	85	10	102	50	1	2	45	1.24
3179873--3179909	15	2.5	15	95	4	67	62	0	0	37	0.96
3180639--3180664	2	13.0	2	100	0	52	50	0	0	50	1.00
3183785--3183950	44	3.7	44	88	6	260	43	10	30	14	1.80
3184278--3184341	2	32.0	2	100	0	128	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198769--3198813	23	1.9	24	86	4	65	31	11	2	55	1.47
3215710--3215738	2	14.5	2	100	0	58	48	0	0	51	1.00
3216194--3216234	21	2.0	21	85	0	55	21	17	0	60	1.35
3216910--3216935	6	4.3	6	100	0	52	15	0	53	30	1.42
3217102--3217194	35	2.6	35	86	5	114	38	8	21	31	1.84
3219388--3219427	21	1.9	21	94	0	71	42	15	17	25	1.88
3224301--3224336	15	2.4	15	100	0	72	11	19	63	5	1.46
3226055--3226110	14	4.0	14	97	0	94	32	7	28	32	1.84
3226870--3226944	21	3.7	20	75	5	69	22	20	25	32	1.98
3228245--3228294	20	2.5	20	84	9	59	30	14	6	50	1.66

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