genome.fa.s8893.2.7.7.80.10.50.1000.3.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  3  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)
429689--429741	15	3.4	15	75	10	52	35	9	9	45	1.69
429835--429866	16	2.0	17	88	11	50	43	21	21	12	1.86
434083--434114	7	4.6	7	100	0	64	87	12	0	0	0.54
434724--434750	9	3.0	9	100	0	54	22	0	0	77	0.76
435746--435778	17	2.1	16	88	11	50	54	0	6	39	1.25
439398--439432	4	8.8	4	100	0	70	77	0	0	22	0.78
439829--439904	30	2.5	30	82	6	91	47	17	18	17	1.83
443640--443689	2	25.0	2	100	0	100	50	0	0	50	1.00
445659--445696	3	12.7	3	100	0	76	68	0	0	31	0.90
446033--446108	40	1.9	39	86	2	107	22	18	38	21	1.94
445900--446252	134	2.6	134	90	0	510	24	18	32	25	1.97
446277--446340	28	2.3	28	94	5	112	50	15	10	23	1.76
446277--446357	28	2.8	28	85	12	101	45	14	14	24	1.83
446477--446546	32	2.2	33	86	2	97	35	11	15	37	1.84
446477--446613	75	1.9	73	85	8	190	38	12	15	33	1.85
446882--446955	31	2.4	30	82	8	78	41	10	16	31	1.82
447416--447473	30	1.9	30	96	0	107	48	13	8	29	1.73
447516--447588	38	1.9	38	86	5	103	36	10	9	42	1.73
447619--447677	31	1.9	31	93	3	102	44	13	13	28	1.82
447691--447806	36	3.3	35	78	8	85	39	13	17	29	1.88
447714--448036	36	9.1	36	70	17	160	37	13	17	31	1.88
447886--448027	35	3.9	36	77	10	128	35	13	18	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448337--448423	4	21.8	4	87	0	129	24	5	25	44	1.75
448326--448423	8	12.0	8	92	4	124	24	6	25	43	1.77
448326--448423	16	6.0	16	93	2	142	24	6	25	43	1.77
448875--449352	236	2.0	240	93	5	837	24	17	21	36	1.95
452670--452731	19	3.2	19	77	20	58	50	3	3	43	1.34
452753--452778	13	2.0	13	100	0	52	46	7	7	38	1.61
452765--452814	26	2.0	26	88	4	75	54	6	6	34	1.50
452942--452991	17	2.7	18	87	9	66	48	0	24	28	1.52
452956--453020	19	3.3	20	78	6	71	49	0	26	24	1.51
452913--453006	46	2.0	46	84	8	120	48	0	23	27	1.51
453299--453397	2	52.5	2	77	18	106	48	3	1	47	1.24
453284--453399	30	3.7	31	78	17	125	47	2	2	47	1.29
454048--454100	2	27.0	2	88	11	83	50	0	1	47	1.12
454189--454241	14	3.8	14	73	9	54	41	32	3	22	1.72
454654--454692	20	2.0	19	85	5	51	51	12	7	28	1.67
454781--454829	9	5.0	10	80	14	57	42	0	0	57	0.99
454767--454840	24	3.3	23	74	18	66	44	1	0	54	1.08
455140--455183	23	1.9	23	100	0	88	50	4	0	45	1.22
455462--455510	16	3.1	16	90	0	71	44	10	24	20	1.82
456717--456774	3	19.0	3	96	3	107	65	0	0	34	0.93
456802--456827	2	13.0	2	100	0	52	50	0	0	50	1.00
458815--458887	16	4.7	16	88	3	105	57	17	13	10	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460357--460454	7	14.0	7	73	0	79	19	0	33	46	1.50
460358--460454	28	3.5	28	89	0	140	19	0	32	47	1.50
460606--460704	10	8.7	10	71	23	54	55	24	8	12	1.63
460596--460705	24	4.6	24	89	0	139	55	22	9	12	1.65
460595--460671	14	6.1	14	66	22	53	59	20	7	11	1.56
460640--460688	14	3.8	14	74	20	61	57	20	6	16	1.60
466267--466333	34	1.9	33	85	8	89	46	14	13	25	1.82
467336--467384	24	2.0	24	96	0	89	26	32	4	36	1.75
467330--467384	6	9.2	6	91	0	74	25	32	3	38	1.73
469640--469703	32	2.0	32	100	0	128	37	0	6	56	1.25
483570--483731	38	4.5	37	78	9	138	41	4	5	48	1.48
483753--483779	14	1.9	14	100	0	54	22	3	0	74	0.98
484969--485035	21	3.2	20	77	10	62	17	1	5	74	1.09
484941--485024	5	16.0	5	73	18	64	16	3	3	76	1.07
486772--486800	12	2.3	13	94	5	51	68	0	0	31	0.89
487008--487096	30	2.9	31	81	3	101	59	10	12	17	1.60
494647--494706	30	2.1	28	84	9	77	21	5	8	65	1.40
494851--494907	30	1.9	30	85	0	78	19	8	10	61	1.54
512965--512994	12	2.4	12	94	5	51	90	0	10	0	0.47
513797--514229	65	6.9	64	81	7	485	40	19	13	26	1.89
513797--514229	125	3.4	125	86	2	584	40	19	13	26	1.89
513804--514229	190	2.3	184	84	6	532	39	19	13	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519983--520139	85	1.8	85	82	5	201	29	15	21	33	1.94
519982--520244	43	6.2	43	72	5	174	30	14	21	34	1.92
524141--524612	233	2.0	235	97	2	898	34	18	13	33	1.90
526315--526448	65	2.1	64	81	4	153	29	21	20	29	1.98
528641--529035	54	7.3	54	86	2	506	37	17	12	32	1.88
528641--529035	162	2.4	161	88	1	565	37	17	12	32	1.88
532653--532720	35	1.9	36	85	8	95	29	11	25	33	1.91
533558--533711	42	3.6	42	79	8	157	22	14	25	37	1.92
533558--533719	21	7.5	21	78	6	137	21	14	26	37	1.92
538125--538626	54	9.3	54	90	0	707	37	18	12	32	1.88
547658--547696	20	2.0	20	94	0	69	20	41	25	12	1.88
549951--550025	21	3.6	21	90	0	114	24	20	24	32	1.98
549951--550056	42	2.5	42	85	0	140	25	19	22	32	1.98
549967--550056	21	4.3	21	86	0	126	26	21	22	30	1.99
553620--553682	32	2.0	32	84	6	83	47	7	0	44	1.32
557010--557042	17	1.9	18	88	11	52	18	3	6	72	1.18
558307--558333	7	3.9	7	100	0	54	25	44	0	29	1.54
562960--563027	32	2.1	33	86	5	95	27	1	8	61	1.34
564248--564382	21	6.8	18	74	12	81	37	21	14	25	1.92
564290--564385	21	4.7	21	82	6	108	38	20	14	26	1.91
564413--564543	20	6.4	20	68	11	79	27	21	12	38	1.89
564290--564470	42	4.4	41	79	9	165	33	21	13	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564414--564522	42	2.7	41	84	2	121	27	22	12	37	1.90
564390--564566	62	2.9	60	74	5	147	28	21	13	36	1.91
564695--564743	22	2.2	22	85	0	71	14	46	12	26	1.79
565376--565409	12	2.8	12	95	0	59	58	26	0	14	1.36
565519--565571	24	2.2	24	100	0	106	26	24	16	32	1.97
565840--565870	3	10.3	3	92	0	53	67	0	32	0	0.91
569153--569177	2	12.5	2	100	0	50	48	0	0	52	1.00
570796--570875	40	2.0	40	97	0	151	37	11	31	20	1.87
574442--575367	108	8.6	107	86	4	1218	27	28	14	29	1.95
574434--575354	163	5.7	161	92	1	1430	28	28	14	29	1.95
576141--576549	128	3.2	127	89	3	590	22	27	15	35	1.94
577807--577836	16	1.9	16	93	6	53	13	20	0	66	1.24
577806--577920	6	18.5	6	68	22	60	8	18	0	73	1.09
581391--581416	12	2.2	12	100	0	52	61	7	7	23	1.49
583821--584008	95	2.0	94	97	1	358	12	21	38	27	1.89
585501--585575	3	25.0	3	75	5	53	38	0	0	61	0.96
585511--585570	27	2.2	27	82	5	68	41	0	0	58	0.98
587373--587701	136	2.4	136	91	3	525	38	7	7	46	1.62
588193--588252	26	2.4	26	83	13	81	33	6	0	60	1.23
588198--588266	26	2.5	26	81	11	77	30	5	1	62	1.27
589938--589981	22	2.0	21	91	4	70	18	11	9	61	1.55
589936--590017	28	2.9	28	78	12	96	20	14	9	54	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592742--592789	9	5.3	9	87	9	71	79	0	20	0	0.74
592749--592789	8	4.8	8	91	8	55	78	0	21	0	0.76
597090--597146	22	2.6	22	88	0	87	35	17	12	35	1.87
597986--598749	113	6.7	113	90	3	1135	37	15	20	26	1.92
598553--598856	123	2.5	122	89	2	475	40	14	19	25	1.89
598799--598896	39	2.5	40	93	1	171	48	10	21	19	1.78
598675--599018	162	2.1	161	85	2	467	41	13	19	25	1.88
598553--599135	284	2.1	284	91	0	943	40	14	19	25	1.89
598831--599151	122	2.6	123	84	3	416	40	14	18	26	1.88
599479--599553	3	25.0	3	75	5	71	36	0	1	62	1.04

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