genome.fa.s7861.2.7.7.80.10.50.1000.3.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: VEPZ01007861.1 Hibiscus syriacus cultivar Beakdansim tig00110226_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  673920

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 505 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)
341744--342226	136	3.6	136	87	3	674	34	18	21	26	1.96
342164--342452	117	2.6	108	84	9	347	39	14	21	24	1.91
345692--345759	23	3.0	23	82	0	82	19	25	25	30	1.98
345789--345827	17	2.4	17	86	4	53	33	20	7	38	1.81
345980--346012	4	8.2	4	100	0	66	24	0	24	51	1.48
347988--348125	35	3.8	35	69	13	91	51	2	9	36	1.47
347983--348143	76	2.1	76	88	2	236	52	2	9	36	1.47
348640--348683	21	2.1	21	95	0	79	47	2	29	20	1.62
348855--348962	24	4.6	22	69	16	58	47	5	4	42	1.47
367770--367841	26	2.7	26	80	6	74	30	1	4	63	1.21
367794--367912	55	2.2	55	87	4	177	33	6	3	56	1.42
368072--368114	18	2.4	18	96	3	79	34	0	0	65	0.93
368099--368131	13	2.5	13	95	0	57	24	0	0	75	0.80
368815--368920	31	3.4	31	93	0	167	21	5	20	51	1.67
373841--373887	19	2.6	18	81	15	60	42	0	8	48	1.33
375047--375094	25	1.9	25	95	0	87	33	10	27	29	1.90
386782--386812	9	3.4	9	100	0	62	80	0	9	9	0.90
386758--386957	7	25.9	7	72	17	62	74	0	15	10	1.07
386889--386940	14	3.9	14	92	5	81	76	0	9	13	1.01
386887--386940	21	2.7	19	86	10	81	77	0	9	12	0.98
386800--386948	49	2.9	50	77	14	137	74	0	14	11	1.07
388323--388631	55	5.6	55	88	5	419	27	16	25	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388323--388631	111	2.8	111	88	3	455	27	16	25	30	1.97
389911--389958	25	1.9	25	95	0	87	33	10	27	29	1.90
397380--397442	30	2.2	28	85	5	81	74	0	1	23	0.90
397566--397618	2	26.5	2	100	0	106	50	0	0	49	1.00
397729--397775	23	2.0	23	84	15	62	70	0	2	27	0.99
398183--398275	37	2.5	37	83	0	105	32	12	12	41	1.81
399036--400205	106	11.0	106	91	0	1802	22	18	24	34	1.96
401818--401875	14	4.4	14	79	14	61	0	15	3	81	0.83
401819--401851	11	3.0	11	91	8	50	0	15	3	81	0.80
401805--401875	25	2.8	25	85	12	83	1	14	4	80	0.93
405233--405270	19	2.0	20	89	5	60	68	2	23	5	1.23
406544--406607	29	2.2	29	86	8	85	71	0	1	26	0.94
406572--406627	22	2.5	21	80	11	58	66	0	3	30	1.09
406788--406814	2	13.5	2	100	0	54	51	0	0	48	1.00
406843--406890	23	2.0	24	84	11	64	70	0	2	27	0.98
407303--407398	37	2.6	37	81	0	120	35	7	16	40	1.76
411870--411920	13	3.9	13	76	0	57	29	7	19	43	1.79
411863--411916	26	2.1	26	89	0	81	27	5	22	44	1.75
416918--416959	17	2.5	17	92	0	66	38	14	7	40	1.73
419860--419890	16	1.9	16	93	0	53	64	0	0	35	0.94
420146--420175	15	2.0	15	93	0	51	63	0	0	36	0.95
420605--420687	23	3.3	23	73	23	60	32	0	1	66	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420605--420687	17	4.8	17	70	21	64	32	0	1	66	1.00
420633--420689	15	3.9	14	72	19	53	29	0	1	68	1.00
420936--420971	18	2.0	18	100	0	72	44	5	11	38	1.63
421225--421249	3	8.3	3	100	0	50	68	0	0	32	0.90
421975--422173	21	9.6	21	77	12	189	32	24	20	23	1.98
421975--422258	103	2.8	102	85	6	378	34	22	20	23	1.97
421975--422213	41	5.8	42	79	8	208	33	23	20	23	1.97
422123--422251	20	6.4	20	89	5	197	37	20	20	21	1.94
422218--422288	21	3.4	21	77	9	67	36	19	21	22	1.95
422372--422453	15	5.3	15	88	2	92	32	46	20	0	1.51
422372--422444	5	14.2	5	94	1	92	32	47	19	0	1.49
423032--423129	42	2.3	42	96	0	178	34	21	21	22	1.97
423032--423134	21	4.9	20	77	15	102	33	21	22	22	1.97
424743--424792	23	2.1	24	92	3	84	46	0	6	48	1.27
425418--425456	19	2.1	19	90	0	60	17	38	15	28	1.91
425404--425566	65	2.5	65	84	3	213	29	26	16	26	1.97
431355--431430	20	3.7	20	75	18	66	31	23	18	26	1.97
432942--432985	21	2.1	21	86	0	61	9	36	15	38	1.80
434036--434072	19	1.9	19	94	0	65	21	37	16	24	1.93
433971--434197	64	3.5	64	82	6	237	29	25	18	26	1.98
434020--434180	65	2.5	65	87	3	227	30	26	16	26	1.97
434903--434963	2	29.5	2	86	6	86	47	3	1	47	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434914--434974	18	3.2	19	86	4	61	42	4	4	47	1.46
435345--435403	21	2.8	21	78	0	73	25	0	23	50	1.49
435483--435548	9	7.6	9	69	19	50	36	6	4	53	1.46
435500--435581	2	40.0	2	72	13	51	37	4	4	52	1.44
435484--435573	35	2.6	35	96	1	164	35	4	5	54	1.44
435506--435576	15	4.5	15	74	19	65	38	2	5	53	1.39
434908--436009	618	1.8	597	90	4	1756	36	8	11	43	1.71
435949--436013	7	9.3	7	81	0	76	16	0	32	50	1.46
435953--436013	21	2.9	21	90	0	86	16	0	32	50	1.45
441005--441048	3	14.0	3	86	13	54	36	0	0	63	0.95
441014--441057	23	1.9	23	90	0	70	43	0	0	56	0.99
445553--445596	7	6.1	7	84	10	54	15	18	9	56	1.65
445552--445596	13	3.2	13	80	17	54	17	17	8	55	1.67
448228--448303	9	8.3	9	77	9	66	75	1	21	2	1.00
448227--448303	28	2.7	29	82	10	95	75	1	20	2	1.00
449613--449714	41	2.5	40	80	7	98	35	10	21	32	1.88
451369--452230	223	3.9	223	87	5	1265	30	18	20	30	1.97
451601--452230	207	2.9	210	88	4	879	30	18	20	31	1.96
452584--452619	14	2.5	14	90	4	54	50	0	0	50	1.00
459195--459240	3	15.3	3	82	8	58	71	0	2	26	0.97
459238--459273	2	18.0	2	94	0	63	52	0	0	47	1.00
459303--459627	37	8.7	37	76	10	254	44	6	4	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459397--459459	29	2.1	31	82	5	76	44	1	4	49	1.33
459268--459639	74	5.0	75	75	14	265	45	6	4	44	1.49
460273--461101	165	5.0	165	91	1	1304	24	20	24	29	1.99
462203--462423	94	2.5	86	78	14	243	30	19	20	29	1.97
462264--462448	94	2.0	95	91	3	302	30	16	18	34	1.93
467313--467359	3	15.3	3	82	12	60	70	0	2	27	0.99
467420--467551	35	3.6	36	78	12	110	44	5	4	45	1.46
467377--467713	74	4.6	72	77	11	251	45	6	4	43	1.49
467377--467719	72	4.7	74	76	12	262	45	6	4	43	1.49
467377--467734	37	9.7	36	75	10	219	45	6	4	43	1.49
473988--474042	24	2.3	24	96	0	101	34	27	21	16	1.95
477624--477677	28	1.9	28	88	7	83	55	5	9	29	1.54
482356--482410	21	2.4	23	82	11	69	41	0	0	58	0.98
482584--482710	64	2.0	64	92	0	209	46	11	10	32	1.73
482675--482722	23	2.1	23	88	0	69	39	10	14	35	1.80
482723--483247	200	2.6	198	85	2	723	31	14	14	39	1.86
483073--483420	177	2.0	178	86	2	495	32	13	13	40	1.84
485793--485831	18	2.2	18	100	0	78	5	38	0	56	1.22
486015--486112	33	3.0	33	93	0	169	26	45	0	27	1.54
486149--486191	21	2.0	21	95	0	77	13	34	11	39	1.82
486276--486306	15	2.1	15	93	0	53	12	58	6	22	1.58
487145--487272	60	2.1	60	83	0	166	38	20	12	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487394--487426	13	2.4	14	90	5	50	36	0	9	54	1.32
487921--487979	31	1.9	31	89	6	93	42	6	8	42	1.61
488004--488046	22	2.0	22	100	0	86	51	13	0	34	1.42
488026--488379	32	11.7	32	73	23	279	53	12	0	33	1.41
488057--488429	53	6.9	52	73	18	320	53	12	0	34	1.41
488028--488151	31	4.1	29	85	7	92	58	10	0	31	1.32
488146--488191	22	2.0	22	87	4	65	54	15	0	30	1.41
488186--488238	14	3.5	14	72	18	52	56	5	0	37	1.23
488168--488224	18	3.4	18	69	18	59	54	12	0	33	1.38
488229--488302	26	3.2	21	75	16	58	54	17	0	28	1.44

Tables:   1   2   3   4   5