genome.fa.s9344.2.7.7.80.10.50.1000.17.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  17  of  24  ( 2784 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)
2924062--2924107	18	2.6	18	85	0	56	39	6	32	21	1.79
2925491--2926023	185	2.9	185	94	1	932	36	13	15	33	1.87
2928870--2928914	22	2.0	22	83	8	56	44	8	8	37	1.67
2929024--2929073	23	2.2	23	92	0	82	36	8	20	36	1.82
2929812--2929857	12	3.8	12	85	0	56	39	6	32	21	1.79
2929812--2929857	18	2.6	18	85	0	56	39	6	32	21	1.79
2931250--2931615	185	2.0	183	96	1	669	36	13	16	33	1.87
2931445--2931752	162	1.9	162	94	2	548	37	12	15	33	1.86
2934557--2934601	22	2.0	22	83	8	56	44	8	8	37	1.67
2934711--2934760	23	2.2	23	96	0	91	34	8	22	36	1.83
2935619--2935666	23	2.1	23	92	0	78	35	16	10	37	1.83
2935619--2935781	87	1.9	87	93	0	281	33	13	10	42	1.78
2935703--2935747	23	2.0	23	90	0	72	37	17	8	35	1.81
2937204--2937250	24	2.0	24	84	12	62	36	2	0	61	1.08
2937244--2937302	15	3.8	16	69	10	50	33	13	0	52	1.41
2937210--2937328	39	3.1	39	75	12	120	36	10	0	53	1.35
2937360--2937406	25	1.9	24	87	12	69	34	4	2	59	1.29
2937484--2937516	2	17.0	2	93	6	59	51	0	0	48	1.00
2938015--2938130	61	1.9	60	87	3	171	38	13	12	35	1.82
2945655--2946591	138	6.8	137	89	2	1325	24	18	19	37	1.94
2945655--2946593	272	3.4	271	87	4	1293	23	18	19	38	1.93
2947534--2947582	16	3.1	16	83	16	66	4	14	0	81	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2947540--2947582	17	2.6	17	85	3	61	4	13	0	81	0.84
2947559--2947610	21	2.5	20	72	22	54	7	17	1	73	1.16
2954128--2954276	32	4.8	31	78	7	133	34	16	18	29	1.94
2954122--2954277	64	2.5	61	79	11	172	33	17	17	30	1.94
2954788--2954837	2	25.0	2	100	0	100	50	0	0	50	1.00
2955388--2955439	20	2.6	20	100	0	104	25	26	21	26	1.99
2972133--2972188	24	2.3	24	100	0	112	37	16	17	28	1.91
2972933--2973007	20	3.6	19	75	20	71	32	21	24	22	1.98
2974528--2974580	23	2.3	23	86	0	79	16	28	28	26	1.97
2974528--2974588	23	2.7	23	84	0	68	18	26	26	29	1.98
2976048--2976093	18	2.6	17	76	10	56	39	4	6	50	1.48
2981813--2981868	17	3.3	17	97	0	103	14	23	44	17	1.85
2981877--2981936	20	3.0	22	81	16	76	31	21	26	20	1.98
2981878--2981936	10	5.9	10	74	18	52	30	22	27	20	1.98
2981870--2981935	30	2.2	30	84	10	82	30	24	27	18	1.98
2988441--2988496	17	3.3	17	100	0	112	12	23	46	17	1.82
2988414--2988451	7	5.4	7	93	0	67	23	28	31	15	1.96
2988517--2988573	10	5.7	10	82	13	73	29	22	28	19	1.98
2988498--2988572	30	2.5	29	85	10	98	29	24	28	18	1.98
2991047--2991080	17	2.0	17	100	0	68	0	47	11	41	1.40
2999523--2999554	16	2.0	16	93	0	55	31	12	34	21	1.91
3003411--3003454	18	2.5	18	85	3	54	56	6	0	36	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3003559--3003614	20	2.8	20	97	2	103	17	14	0	67	1.22
3003560--3003616	10	5.8	9	82	17	69	15	14	0	70	1.18
3004164--3004222	27	2.2	26	85	11	75	52	10	8	28	1.64
3013193--3013218	5	5.2	5	100	0	52	80	0	0	19	0.71
3020996--3021089	2	47.0	2	93	0	161	47	1	0	51	1.07
3021075--3021388	37	8.2	36	76	16	253	43	4	6	45	1.48
3026488--3026523	18	1.9	19	88	5	56	38	19	11	30	1.86
3026509--3027913	106	13.3	106	95	0	2467	33	25	17	22	1.96
3028007--3028325	81	3.9	80	81	2	359	29	26	21	23	1.99
3027990--3028325	163	2.0	165	88	3	491	28	25	21	23	1.99
3028873--3028960	2	44.0	2	95	0	158	48	1	0	50	1.08
3028946--3029243	36	8.2	35	75	17	229	43	4	7	45	1.51
3029337--3029388	27	2.0	27	84	3	70	21	1	1	75	1.00
3035824--3035874	25	2.0	25	100	0	102	35	15	15	33	1.90
3037966--3038006	20	2.0	20	100	0	82	34	7	14	43	1.73
3047006--3048543	182	8.5	181	91	2	2239	43	12	15	28	1.84
3049274--3049797	199	2.6	197	79	7	551	38	14	15	30	1.88
3049876--3049920	23	2.0	23	95	0	81	37	20	8	33	1.83
3049792--3049954	87	1.9	87	94	0	290	31	15	12	41	1.84
3050150--3050198	22	2.3	21	83	13	57	48	12	26	12	1.75
3052278--3052355	24	3.1	24	77	15	70	50	0	2	47	1.15
3052290--3052332	17	2.7	16	85	7	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3052293--3052355	23	2.6	23	85	7	72	49	0	1	49	1.10
3056982--3057036	23	2.3	23	81	3	65	49	1	1	47	1.23
3057553--3057688	31	4.6	28	76	13	121	37	6	2	53	1.39
3057510--3057688	29	6.0	30	74	15	142	37	6	2	53	1.40
3057527--3057693	60	2.8	59	79	8	171	35	6	2	55	1.39
3058302--3058366	31	2.1	31	85	5	87	56	4	9	29	1.50
3059928--3060048	35	3.4	36	81	5	147	34	2	16	46	1.61
3064560--3064679	35	3.3	36	84	9	156	30	4	20	45	1.70
3065972--3066052	39	2.1	39	88	0	117	40	11	6	41	1.65
3066459--3066521	31	2.0	31	96	0	117	41	11	6	41	1.66
3073627--3073675	20	2.5	20	89	0	80	46	26	18	8	1.76
3073684--3073767	20	4.2	20	89	0	114	13	16	21	48	1.80
3075897--3075994	21	4.7	21	75	8	76	23	32	19	24	1.97
3077869--3077904	18	2.0	18	94	0	63	16	2	25	55	1.55
3080958--3080996	15	2.5	15	83	4	51	66	0	5	28	1.12
3081152--3081284	20	6.7	20	83	7	92	25	9	24	40	1.85
3081172--3081231	19	3.1	19	92	2	84	31	11	23	33	1.91
3081153--3081244	39	2.3	41	83	5	109	30	9	23	35	1.87
3081211--3081298	20	4.3	20	89	1	122	19	9	26	45	1.80
3081170--3081298	40	3.2	41	80	3	129	23	10	25	41	1.85
3081170--3081318	40	3.7	42	75	11	127	23	11	24	40	1.88
3081292--3081338	20	2.3	20	85	0	58	25	17	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3081806--3081837	14	2.2	14	94	5	55	71	6	0	21	1.07
3081785--3081837	15	3.6	15	84	2	63	66	3	0	30	1.10
3082204--3082285	15	5.5	15	88	2	121	37	7	19	35	1.80
3082204--3082285	30	2.8	30	94	1	139	37	7	19	35	1.80
3082199--3082285	45	2.0	44	93	2	147	40	6	19	33	1.78
3082268--3082337	20	3.5	20	96	0	131	40	10	14	35	1.79
3082504--3082566	27	2.3	26	84	10	81	50	1	1	46	1.20
3082588--3082675	22	3.8	23	78	14	76	46	0	1	52	1.08
3082573--3082671	45	2.1	49	83	9	125	49	1	1	48	1.14
3082615--3082675	21	2.7	22	78	9	61	52	0	0	47	1.00
3082573--3082666	48	2.0	48	82	13	117	48	1	1	48	1.15
3082864--3082978	42	2.7	42	86	0	176	46	17	16	20	1.85
3092190--3092352	30	5.5	30	71	7	100	20	12	10	56	1.65
3092209--3092336	60	2.1	60	81	8	145	22	13	9	54	1.67
3092310--3092394	29	2.9	30	83	1	100	14	11	14	60	1.60
3092317--3092394	30	2.7	29	83	2	93	14	12	12	60	1.60
3094353--3094412	30	2.0	29	87	9	86	15	15	8	61	1.55
3095586--3095672	20	4.1	20	76	16	84	25	24	14	35	1.94
3095582--3095670	46	1.9	46	95	0	160	24	26	14	33	1.94
3096236--3096306	25	2.8	25	81	10	65	77	4	15	2	1.04
3096267--3096381	10	10.5	11	68	19	55	79	6	12	1	1.01
3096261--3096381	14	8.7	14	70	16	83	79	6	12	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096216--3096360	15	9.1	15	69	17	69	77	6	13	3	1.09
3096268--3096381	26	4.6	25	76	10	101	78	7	12	1	1.01
3096261--3096383	39	3.1	38	76	15	110	78	6	13	1	1.01
3099423--3099485	22	2.9	22	88	11	103	25	22	25	26	2.00
3099423--3099484	21	3.0	20	92	7	97	25	22	25	25	2.00
3100195--3101058	134	6.5	134	83	4	862	25	31	17	25	1.97
3100712--3100787	40	1.9	40	83	0	98	21	36	18	23	1.95
3101243--3101280	14	2.7	14	84	8	51	36	0	0	63	0.95
3101550--3101601	3	17.0	3	84	11	70	36	0	0	63	0.95
3102916--3102965	22	2.2	22	85	7	64	42	4	0	54	1.19

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