genome.fa.s8893.2.7.7.80.10.50.1000.13.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

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

This is table  13  of  13  ( 1547 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)
2552521--2552581	10	6.3	10	69	7	54	13	9	14	62	1.55
2556233--2556420	97	1.9	99	83	4	247	30	15	16	37	1.90
2561291--2561365	30	2.4	30	82	14	82	38	0	1	60	1.06
2561313--2561347	17	2.0	18	88	5	54	37	0	2	60	1.12
2563086--2563133	21	2.3	21	85	0	60	25	39	12	22	1.89
2563137--2563188	21	2.5	21	81	12	70	17	34	28	19	1.94
2563710--2563807	34	2.9	34	89	0	142	55	4	4	36	1.38
2563923--2563952	14	2.1	14	93	0	51	60	10	0	30	1.30
2564208--2564958	128	5.9	128	96	1	1345	33	19	24	23	1.97
2565029--2565069	8	5.2	8	82	5	57	36	29	0	34	1.58
2574181--2574210	14	2.1	14	93	0	51	56	10	30	3	1.48
2575775--2576037	81	3.2	81	85	1	355	31	17	31	20	1.95
2581964--2582029	31	2.1	31	88	0	105	50	16	12	21	1.77
2587279--2587395	43	2.6	45	89	9	175	47	21	11	19	1.82
2587279--2587402	49	2.7	49	90	8	197	45	22	12	19	1.83
2590001--2590075	38	2.0	38	100	0	150	46	21	8	24	1.77
2592292--2592328	13	2.8	13	88	12	58	59	0	0	40	0.97
2592286--2592326	13	3.2	12	86	10	55	60	0	0	39	0.96
2592536--2592575	21	1.9	21	90	10	64	25	2	27	45	1.66
2600335--2600386	22	2.3	22	78	15	54	50	1	48	0	1.12
2600714--2600791	21	3.7	21	85	0	120	29	14	25	30	1.94
2600780--2600869	41	2.2	41	88	2	137	20	18	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2600841--2600888	19	2.5	19	100	0	96	18	20	18	41	1.90
2600964--2601002	6	6.5	6	93	0	69	33	48	15	2	1.58
2601492--2601518	6	4.5	6	100	0	54	0	14	51	33	1.43
2601599--2601728	41	3.2	41	83	10	137	37	23	20	18	1.94
2601681--2601827	21	7.4	20	77	9	124	32	26	19	21	1.97
2601661--2601789	21	6.6	19	73	11	109	36	24	22	16	1.94
2601679--2601827	57	2.5	59	90	5	223	33	26	19	20	1.97
2601722--2601810	40	2.2	40	96	2	162	32	28	21	17	1.96
2601843--2601877	18	1.9	18	94	0	61	28	17	28	25	1.97
2602214--2602257	22	1.9	24	86	9	65	50	0	6	43	1.29
2602708--2603152	226	2.0	226	94	0	791	23	21	13	40	1.89
2604639--2604719	34	2.4	34	97	0	153	32	14	25	27	1.95
2608553--2608674	31	3.9	31	80	5	138	31	18	17	31	1.94
2608664--2608730	30	2.2	30	83	0	89	23	19	25	31	1.98
2612013--2612169	64	2.5	65	78	10	164	33	20	19	26	1.96
2613260--2613390	31	4.2	31	76	13	135	31	19	17	31	1.95
2613374--2613445	30	2.4	30	92	0	117	23	20	25	30	1.99
2614262--2614313	26	2.0	26	100	0	104	34	3	11	50	1.57
2614743--2614783	3	13.7	3	100	0	82	34	0	0	65	0.93
2615556--2615617	26	2.4	26	86	0	88	19	17	9	53	1.71
2615981--2616020	20	2.0	20	95	0	71	42	20	25	12	1.86
2617815--2617842	3	9.3	3	100	0	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2619693--2619753	32	1.9	32	93	0	104	22	22	16	37	1.93
2626602--2626734	65	2.0	66	97	1	250	40	15	18	26	1.89
2627848--2627873	4	6.5	4	100	0	52	76	0	0	23	0.78
2628069--2628140	31	2.3	31	85	0	99	29	15	9	45	1.78
2628396--2628459	23	2.7	23	85	9	76	54	0	4	40	1.21
2628396--2628459	24	2.7	24	83	13	71	54	0	4	40	1.21
2628396--2628459	25	2.6	25	85	9	80	54	0	4	40	1.21
2631726--2631759	11	3.0	11	91	4	50	41	0	11	47	1.40
2632954--2632985	14	2.3	14	94	0	55	34	28	12	25	1.92
2646718--2646780	32	2.0	32	100	0	126	38	0	4	57	1.20
2646675--2646767	48	1.9	49	82	10	120	31	1	3	64	1.16
2646754--2647106	132	2.7	132	92	1	595	36	9	5	48	1.60
2647222--2647268	17	2.8	17	83	3	60	8	12	27	51	1.69
2651091--2651127	14	2.6	14	86	0	56	8	8	24	59	1.53
2653985--2654011	6	4.5	6	100	0	54	14	33	37	14	1.88
2655211--2655235	2	12.5	2	100	0	50	48	0	0	52	1.00
2655378--2655409	15	2.3	15	89	10	50	31	0	12	56	1.37
2656795--2656834	21	2.0	21	90	5	64	42	17	22	17	1.89
2657227--2657353	60	2.1	60	88	0	182	21	14	22	41	1.89
2657227--2657353	20	6.3	20	81	5	141	21	14	22	41	1.89
2657227--2657378	40	3.8	40	82	8	141	22	14	22	40	1.90
2657251--2657377	60	2.1	60	84	5	159	22	16	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2657371--2657410	21	1.9	21	100	0	80	42	17	20	20	1.89
2657449--2657511	23	2.7	23	97	2	117	22	11	23	42	1.85
2658118--2658171	2	27.0	2	100	0	108	50	0	0	50	1.00
2661179--2661212	14	2.5	14	90	4	52	47	26	0	26	1.53
2668567--2668739	82	2.0	87	92	7	293	22	20	15	41	1.90
2675093--2675125	2	16.5	2	93	0	57	48	0	0	51	1.00
2679259--2679306	24	2.0	24	84	8	62	43	10	14	31	1.79
2690307--2690371	2	32.5	2	100	0	130	49	0	0	50	1.00
2697966--2697998	2	16.5	2	100	0	66	51	0	0	48	1.00
2698145--2698179	3	11.7	3	100	0	70	31	0	0	68	0.90
2699623--2699670	25	2.0	24	87	4	69	54	16	4	25	1.60
2701761--2702724	55	17.7	55	91	3	1484	28	27	14	28	1.96
2701761--2702724	218	4.4	220	92	2	1484	28	27	14	28	1.96
2701761--2702724	273	3.5	273	93	2	1614	28	27	14	28	1.96
2715083--2715130	25	2.0	24	87	4	69	54	16	4	25	1.60
2720058--2720178	60	2.0	61	98	1	235	16	9	21	52	1.73
2726321--2726384	26	2.5	26	97	0	119	31	18	9	40	1.83
2727369--2727472	36	2.9	36	88	0	145	42	22	15	20	1.89
2730230--2730258	2	14.5	2	100	0	58	48	0	0	51	1.00
2750853--2750937	7	11.9	7	74	12	57	22	0	31	45	1.52
2750822--2750952	29	4.6	28	78	14	101	25	0	31	42	1.55
2750849--2750952	14	7.3	13	71	18	66	25	0	30	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2751284--2751316	17	1.9	17	93	0	57	66	0	0	33	0.92
2752135--2752167	2	16.5	2	100	0	66	48	0	0	51	1.00
2758300--2758385	39	2.2	39	91	0	136	25	19	32	22	1.97
2762605--2762634	15	2.0	15	93	0	51	23	6	13	56	1.60
2771214--2771307	45	2.1	44	90	2	143	28	4	13	53	1.59
2774087--2774165	1	79.0	1	73	0	50	1	13	0	84	0.68
2774089--2774195	7	14.6	7	75	19	85	1	16	0	81	0.78
2774098--2774195	6	16.7	6	80	16	75	2	16	0	81	0.78
2774110--2774184	5	15.6	5	74	18	52	1	17	0	81	0.76
2774091--2774199	44	2.5	43	82	5	130	1	18	0	79	0.81
2776982--2777075	43	2.1	46	88	5	140	53	12	5	28	1.61
2778165--2778222	1	58.0	1	78	0	53	87	0	12	0	0.53
2778163--2778228	33	2.0	33	87	0	96	84	0	15	0	0.61
2778163--2778229	5	13.4	5	80	13	52	83	0	16	0	0.64
2778163--2778229	22	3.1	21	83	10	73	83	0	16	0	0.64
2778170--2778252	39	2.2	38	84	6	105	80	0	19	0	0.71
2778163--2778250	26	3.5	25	82	13	85	80	0	19	0	0.71
2780087--2780212	62	2.0	62	86	6	175	26	23	15	34	1.94
2780959--2781039	40	2.0	40	97	0	153	46	3	14	34	1.63

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

The End!