genome.fa.s8281.2.7.7.80.10.50.1000.3.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: VEPZ01008281.1 Hibiscus syriacus cultivar Beakdansim tig00110943_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2054746

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

This is table  3  of  10  ( 1093 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)
390461--390541	30	2.7	30	84	5	101	49	7	12	30	1.68
391001--391161	5	32.2	5	100	0	322	40	0	0	59	0.97
392477--392889	228	1.8	228	85	4	582	36	7	19	36	1.80
396395--396442	19	2.6	18	83	6	60	35	2	16	45	1.59
399060--399976	198	4.5	197	84	6	1032	40	13	13	32	1.84
399736--399793	21	2.8	21	100	0	116	27	10	13	48	1.75
399540--399971	221	2.0	221	87	1	634	38	12	14	34	1.84
407513--407571	23	2.7	23	84	5	68	72	3	22	1	1.08
407529--407597	15	4.8	15	75	20	67	78	1	18	1	0.91
407521--407610	42	2.2	39	81	14	103	78	2	17	1	0.91
407522--407588	26	2.4	29	88	11	97	77	1	20	0	0.85
407521--407610	41	2.2	40	82	9	103	78	2	17	1	0.91
407538--407608	26	2.8	24	81	10	79	80	1	16	1	0.86
408733--408828	38	2.6	37	80	9	106	30	22	7	39	1.81
408733--408809	37	2.1	38	85	2	102	27	22	7	42	1.80
408775--408940	67	2.5	67	90	2	248	33	18	9	39	1.82
408999--409108	36	3.0	36	72	5	96	37	16	11	34	1.85
409037--409182	76	1.9	76	80	8	172	33	18	9	38	1.83
409149--409386	65	3.7	63	83	6	264	32	18	10	38	1.85
409149--409459	130	2.3	130	81	11	339	30	18	11	38	1.87
409340--409401	21	3.2	20	68	25	53	27	19	11	41	1.85
409334--409531	36	5.3	36	78	10	209	25	22	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409371--409697	172	1.9	167	85	6	444	25	22	14	37	1.92
409404--409661	130	1.9	131	82	9	317	25	22	14	36	1.93
409540--409733	36	5.4	36	87	4	284	25	23	15	36	1.94
409606--409748	15	8.3	15	67	24	70	23	24	16	34	1.95
413456--413539	6	14.0	6	87	0	96	30	9	7	52	1.61
413434--413538	30	3.5	30	88	2	131	30	8	8	52	1.62
413456--413539	36	2.3	36	100	0	168	30	9	7	52	1.61
415377--415416	19	2.1	19	90	4	62	50	7	12	30	1.68
415418--416627	247	4.9	247	88	0	1677	43	16	13	25	1.86
418488--418514	2	13.5	2	100	0	54	51	48	0	0	1.00
418893--419531	108	5.7	108	70	12	434	32	15	13	38	1.87
418924--419827	225	4.1	226	85	4	1119	30	16	14	39	1.88
422421--422612	28	7.1	26	69	21	87	49	1	1	47	1.17
422429--422588	29	5.6	29	73	17	108	50	1	1	47	1.17
422429--422527	30	3.4	28	80	18	105	51	2	0	46	1.12
422541--422587	22	2.1	23	88	4	69	53	0	2	44	1.12
422817--422905	41	2.1	42	87	2	135	44	16	17	20	1.86
423069--423106	18	2.1	18	95	0	67	21	2	15	60	1.47
425236--425269	17	1.9	18	94	5	61	64	2	14	17	1.40
428866--428948	37	2.2	38	81	12	100	69	0	3	26	1.04
429628--429832	75	2.8	75	89	4	301	58	12	0	28	1.41
437246--437297	15	3.3	15	72	5	50	67	0	5	26	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437215--437277	33	1.9	33	83	6	83	68	0	4	26	1.10
437215--437297	30	2.6	31	81	12	89	67	0	6	26	1.13
437495--437646	76	2.0	76	100	0	304	28	18	13	39	1.88
438095--438122	12	2.3	12	100	0	56	53	7	0	39	1.28
438048--438258	76	2.9	76	83	8	233	57	12	1	28	1.44
443406--443452	21	2.2	21	88	0	67	19	23	19	38	1.93
444912--444942	11	2.7	11	95	5	53	80	0	0	19	0.71
444898--444946	15	3.4	14	81	13	55	77	0	4	18	0.92
445783--445812	5	6.0	5	100	0	60	60	0	0	40	0.97
447625--447660	2	18.0	2	100	0	72	50	0	0	50	1.00
447680--447722	22	1.9	23	85	4	61	48	0	0	51	1.00
448221--448268	21	2.3	21	88	0	69	35	25	16	22	1.95
451529--451580	27	1.9	27	96	0	95	48	11	15	25	1.78
453491--453547	27	2.1	27	93	3	98	47	15	12	24	1.80
454833--454904	32	2.2	32	82	4	83	16	26	30	26	1.97
458128--458213	27	3.2	27	94	0	145	47	15	13	23	1.81
460434--460603	45	3.8	45	92	1	279	44	7	19	28	1.78
460993--461036	21	2.1	21	82	0	52	31	22	20	25	1.98
464501--464794	147	2.0	147	100	0	588	31	6	17	43	1.75
466442--466606	45	3.7	45	95	1	287	42	7	20	30	1.79
466509--466582	24	3.2	24	61	24	59	45	4	18	31	1.68
475236--475292	30	1.9	30	85	7	80	40	14	24	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480942--481082	70	2.0	70	100	0	282	32	20	15	31	1.94
485250--485356	45	2.4	45	85	4	135	29	21	19	28	1.98
485326--485374	19	2.6	19	84	9	57	24	28	20	26	1.99
493796--493838	19	2.4	17	78	14	50	25	27	18	27	1.98
493801--493838	19	2.0	19	89	0	58	23	28	18	28	1.98
496178--496237	19	3.1	19	70	21	52	20	18	23	38	1.93
498318--498581	131	2.0	131	97	0	501	22	17	28	30	1.97
505080--505179	7	14.0	7	74	12	69	44	5	4	47	1.43
505079--505155	12	6.5	12	75	11	52	41	2	5	50	1.38
505080--505166	23	4.0	21	77	7	77	43	3	4	48	1.40
505129--505166	20	1.9	20	88	0	58	47	2	0	50	1.15
506270--506344	15	4.9	15	72	15	64	14	8	2	74	1.15
506269--506344	31	2.5	29	76	16	73	14	7	2	75	1.14
506366--506408	2	21.5	2	100	0	86	48	0	0	51	1.00
506437--506461	9	2.8	9	100	0	50	0	16	0	84	0.63
506747--506776	10	3.0	10	100	0	60	40	10	10	40	1.72
506744--506791	20	2.4	19	80	16	53	41	10	10	37	1.74
506913--506950	19	2.0	19	100	0	76	42	5	21	31	1.75
507184--507226	20	2.2	20	86	0	59	37	34	9	18	1.83
524934--524973	21	1.9	21	85	10	55	35	7	2	55	1.42
530449--530486	18	2.1	18	85	14	51	34	0	0	65	0.93
530449--530486	10	4.1	9	86	13	51	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530527--530559	2	16.5	2	100	0	66	48	0	0	51	1.00
530615--530665	2	25.5	2	100	0	102	49	0	0	50	1.00
530737--530832	32	3.0	32	72	13	83	28	5	1	65	1.20
535442--535500	15	3.9	14	80	12	64	83	5	10	1	0.88
535434--535488	18	3.0	18	82	10	67	81	9	9	0	0.87
535435--535502	16	4.1	16	77	7	73	83	5	8	1	0.85
536104--536158	22	2.5	22	100	0	110	36	27	12	23	1.91
537120--538395	106	12.0	106	90	0	1843	34	23	18	23	1.96
539144--539248	37	2.8	37	79	2	113	41	14	13	30	1.84
539644--539691	23	2.1	24	84	7	64	33	0	2	64	1.05
539781--539808	14	2.0	14	100	0	56	21	14	0	64	1.29
539908--539943	19	1.9	18	88	5	54	33	2	0	63	1.08
539956--540026	23	3.2	20	75	22	63	26	2	0	70	1.01
539967--540024	28	2.1	27	81	9	64	27	3	0	68	1.05
541364--541393	15	1.9	15	93	6	51	33	0	3	63	1.11
541503--541552	21	2.4	20	80	9	55	66	8	0	26	1.19
546355--546399	24	1.9	24	81	4	56	22	31	2	44	1.65
546921--547457	267	2.0	267	96	0	993	34	10	18	36	1.86
548397--548462	15	4.4	15	80	0	78	31	7	19	40	1.80
548573--548651	23	3.4	23	81	6	90	20	18	25	35	1.95
549155--549179	12	2.1	12	100	0	50	60	24	0	16	1.36
554798--554841	21	2.2	20	84	8	54	45	9	13	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555491--555556	23	2.9	23	82	8	89	19	21	22	36	1.95
555548--555603	24	2.4	24	81	3	69	26	21	16	35	1.94
566638--566671	2	17.0	2	100	0	68	50	0	0	50	1.00
569166--569236	22	3.2	22	70	7	63	32	16	16	33	1.92
569177--569246	22	3.2	22	66	8	61	34	22	14	28	1.93
575103--575144	18	2.3	18	100	0	84	26	7	9	57	1.56
575143--575174	2	16.0	2	100	0	64	50	0	0	50	1.00
576674--576739	31	2.1	31	86	5	89	24	10	13	51	1.72
576985--577026	15	2.7	15	85	3	57	69	2	0	28	1.01
580281--580327	23	2.0	24	95	4	87	42	14	12	29	1.83

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