genome.fa.s7956.2.7.7.80.10.50.1000.12.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: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3102597

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

This is table  12  of  14  ( 1676 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)
2512914--2513104	20	9.8	20	83	8	193	37	24	17	21	1.94
2513775--2513820	24	2.0	23	87	12	67	26	15	21	36	1.93
2513993--2514027	12	2.9	12	91	8	54	74	2	22	0	0.95
2513993--2514032	15	2.7	16	85	14	59	75	2	22	0	0.93
2516244--2516431	19	10.7	19	76	18	201	45	18	20	15	1.85
2516244--2516393	70	2.1	72	92	4	252	47	18	20	14	1.83
2516230--2516431	52	3.9	52	83	11	263	45	18	21	14	1.85
2516402--2516516	52	2.2	52	88	0	167	19	23	18	39	1.92
2516440--2516517	19	4.4	19	81	15	112	14	21	17	46	1.84
2516624--2516660	14	2.6	14	91	0	65	45	21	0	32	1.52
2518637--2518691	14	3.7	14	79	13	65	43	23	21	10	1.84
2518618--2518708	31	2.8	33	88	6	150	46	21	20	10	1.82
2518581--2518713	19	7.6	19	76	16	110	45	24	19	11	1.83
2518709--2518799	33	2.8	33	91	5	141	7	18	28	45	1.77
2518709--2518836	19	7.3	19	74	18	116	8	17	28	45	1.78
2518884--2519258	93	4.1	93	98	1	727	46	19	12	21	1.83
2518884--2519258	185	2.0	186	98	1	727	46	19	12	21	1.83
2520962--2521051	14	5.7	14	72	23	72	43	23	24	8	1.82
2520954--2521067	33	3.5	33	97	0	219	45	21	23	9	1.81
2520976--2521067	19	5.4	19	71	24	87	44	22	22	9	1.82
2521084--2521140	14	3.7	14	75	20	60	8	24	22	43	1.81
2521068--2521148	33	2.5	33	95	0	144	8	22	22	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2521125--2521200	21	3.7	21	83	3	109	11	25	17	46	1.82
2521124--2521201	41	1.9	41	97	0	147	12	25	16	44	1.83
2521280--2521350	33	2.2	33	92	0	115	47	18	22	11	1.80
2521531--2521585	22	2.5	22	75	0	65	21	16	38	23	1.93
2521732--2521885	20	7.7	20	81	7	168	18	18	26	37	1.93
2521731--2521885	40	3.8	40	82	4	186	18	18	26	37	1.93
2521872--2521954	21	4.0	21	73	6	78	25	16	24	33	1.96
2521852--2521950	42	2.4	43	77	11	100	21	18	23	37	1.94
2522097--2522136	21	2.0	20	85	5	53	65	2	5	27	1.27
2522117--2522154	16	2.4	16	82	4	51	63	0	5	31	1.17
2522298--2522367	25	2.8	24	73	18	63	55	1	5	37	1.32
2522840--2522940	36	2.8	37	84	6	125	31	14	14	38	1.87
2523474--2523570	7	13.9	7	79	8	99	17	2	38	42	1.61
2530498--2530576	19	3.8	20	79	12	72	24	32	24	18	1.97
2540440--2540469	15	1.9	16	93	6	53	26	0	10	63	1.26
2545664--2545836	30	5.7	30	79	6	181	61	7	13	17	1.55
2545664--2545829	90	1.8	89	83	6	208	60	7	13	17	1.56
2547295--2547336	3	14.7	3	90	9	70	66	0	0	33	0.92
2547524--2547819	134	2.2	131	82	3	333	22	16	33	27	1.96
2547625--2547825	43	4.6	42	72	19	153	21	16	34	27	1.95
2547878--2548069	66	2.9	67	81	14	218	39	11	21	27	1.88
2548122--2548239	37	3.2	37	86	3	159	36	10	17	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2549399--2549488	27	3.3	27	70	25	73	1	17	10	71	1.20
2550610--2550646	17	2.1	19	85	10	51	54	8	16	21	1.68
2553011--2553245	30	7.8	30	88	6	316	60	9	13	16	1.57
2554177--2554229	6	8.7	6	97	2	97	0	18	0	81	0.70
2554675--2554706	3	11.0	3	93	6	57	68	0	0	31	0.90
2558525--2558550	12	2.2	12	100	0	52	15	0	7	76	0.99
2561762--2561831	31	2.2	29	77	20	70	48	0	2	48	1.16
2561900--2561968	19	3.5	20	75	11	63	49	1	1	47	1.19
2562156--2562204	24	2.0	25	84	4	64	44	4	4	46	1.41
2566072--2566110	2	19.5	2	100	0	78	48	0	0	51	1.00
2566891--2566969	32	2.5	31	72	2	86	56	0	11	31	1.34
2566909--2566958	14	3.4	14	78	21	57	48	0	16	36	1.46
2567346--2567465	42	2.9	42	86	2	161	30	23	20	26	1.98
2568663--2568691	2	15.0	2	92	7	51	51	0	0	48	1.00
2573698--2573736	7	6.0	6	91	8	51	20	33	30	15	1.94
2573733--2573779	5	9.8	5	79	9	53	4	21	51	23	1.65
2573733--2573788	19	2.9	19	91	0	94	5	21	48	25	1.71
2582047--2582189	42	3.4	42	83	2	173	30	20	23	25	1.99
2582191--2582520	98	3.4	98	88	4	434	37	19	12	31	1.88
2582629--2582690	21	3.2	21	63	32	57	38	14	19	27	1.90
2582533--2582780	36	6.7	36	87	6	277	36	15	19	28	1.92
2582823--2583017	98	2.0	98	90	0	309	36	18	11	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2583023--2583105	39	2.1	39	88	4	123	37	18	14	30	1.90
2583083--2583214	36	3.7	36	83	2	140	43	12	15	28	1.84
2583083--2583257	72	2.4	74	80	3	176	40	11	17	30	1.85
2583160--2583349	74	2.6	73	82	4	229	38	11	20	30	1.87
2583160--2583326	37	4.5	37	90	2	228	39	9	20	30	1.84
2583371--2583506	37	3.6	36	72	13	114	38	9	18	33	1.83
2583373--2583544	72	2.3	76	81	8	194	36	11	17	34	1.85
2589982--2590029	19	2.6	17	78	12	51	60	2	10	27	1.41
2591777--2591819	13	3.4	12	84	12	59	44	9	9	37	1.69
2595475--2595542	15	4.7	15	70	17	63	23	32	19	25	1.97
2598786--2598825	2	20.0	2	100	0	80	50	0	0	50	1.00
2600015--2600104	14	6.3	14	74	13	67	74	1	16	7	1.11
2600028--2600104	7	10.6	7	76	13	66	75	0	16	7	1.03
2600033--2600104	23	3.2	22	88	5	108	75	0	16	8	1.04
2600019--2600136	45	2.6	44	81	10	123	72	1	15	11	1.20
2600208--2600268	29	2.1	30	81	9	72	70	1	3	24	1.11
2600201--2600281	9	9.1	9	71	12	53	71	1	2	24	1.05
2600201--2600279	27	2.8	29	77	13	83	70	1	2	25	1.07
2600202--2600281	28	2.8	28	75	14	83	71	1	2	25	1.06
2600350--2600388	17	2.2	19	90	9	64	66	5	0	28	1.12
2600676--2600705	2	15.0	2	100	0	60	50	0	0	50	1.00
2600572--2600792	117	1.9	116	99	0	433	34	18	15	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2601555--2601601	3	16.0	3	91	4	78	63	0	0	36	0.94
2602327--2603413	85	12.8	85	83	1	1236	25	18	21	34	1.96
2604523--2604776	99	2.6	98	87	7	365	32	17	18	31	1.94
2608969--2609016	7	6.6	7	79	9	51	68	0	22	8	1.16
2608960--2609010	22	2.3	23	89	3	77	64	0	23	11	1.26
2608960--2609010	23	2.3	22	86	10	68	64	0	23	11	1.26
2608970--2609028	32	1.9	30	89	6	91	66	0	22	11	1.24
2609109--2609195	4	20.5	4	79	11	66	68	0	1	29	0.96
2609137--2609195	21	2.7	23	79	10	70	69	0	0	30	0.89
2609113--2609193	30	2.5	33	82	13	98	67	0	1	30	0.98
2609121--2609193	29	2.7	26	83	10	76	67	0	0	32	0.91
2610331--2610373	3	14.7	3	90	4	70	62	0	0	37	0.95
2610371--2610396	2	13.0	2	100	0	52	50	0	0	50	1.00
2616885--2617452	105	5.4	106	93	3	952	23	17	25	33	1.96
2622723--2622758	11	3.5	11	82	17	51	38	0	0	61	0.96
2623324--2623397	30	2.5	30	84	6	89	40	27	6	25	1.80
2623807--2623844	17	2.3	17	90	4	60	47	5	2	44	1.39
2624074--2624137	29	2.2	29	91	0	101	35	7	7	48	1.61
2624076--2624150	29	2.6	29	86	2	96	36	8	9	46	1.65
2624083--2624277	103	2.0	97	85	10	263	36	10	9	42	1.73
2625014--2625050	14	2.7	13	88	12	56	35	0	0	64	0.94
2625113--2625194	29	2.8	28	78	19	78	35	6	1	57	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2625011--2625194	3	60.3	3	66	23	50	34	4	2	58	1.32
2625567--2625649	27	3.3	27	74	17	72	42	13	14	30	1.84
2625570--2625654	22	3.5	23	77	16	84	38	15	16	29	1.89
2626268--2626657	185	2.1	184	88	3	561	44	2	6	46	1.42
2627471--2627506	16	2.2	17	90	5	56	25	13	8	52	1.68
2637484--2637522	17	2.2	19	86	9	55	43	0	15	41	1.46
2641683--2641725	22	2.0	22	100	0	86	23	23	25	27	2.00
2643689--2643723	18	1.9	18	94	0	61	34	34	14	17	1.90
2648681--2648734	21	2.5	23	82	11	69	27	25	16	29	1.97
2651903--2651957	21	2.6	21	97	0	101	40	23	5	30	1.77

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