genome.fa.s3885.2.7.7.80.10.50.1000.3.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: VEPZ01003885.1 Hibiscus syriacus cultivar Beakdansim tig00008386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  757743

Tables:   1   2   3   4   

This is table  3  of  4  ( 455 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)
371982--372033	20	2.6	20	84	0	68	9	21	23	46	1.80
371861--372091	116	2.0	115	86	5	322	19	18	22	39	1.92
372181--372214	6	5.7	6	100	0	68	32	50	17	0	1.47
372712--372747	10	3.3	11	92	7	56	0	16	55	27	1.42
372709--372743	5	6.6	5	96	3	52	0	20	54	25	1.45
372744--372774	6	5.2	6	100	0	62	32	0	32	35	1.58
372870--372962	22	4.4	22	74	9	95	36	24	18	20	1.95
372848--372962	22	5.6	20	70	11	72	37	23	18	20	1.94
372893--372981	41	2.2	41	87	4	126	40	23	17	17	1.91
372906--372982	40	1.9	41	91	2	129	38	20	20	19	1.93
372954--373046	20	4.6	20	82	2	114	44	21	20	13	1.86
372977--373071	41	2.3	41	94	0	163	40	22	20	17	1.92
372927--373046	61	2.0	61	85	6	163	42	20	20	15	1.89
372994--373067	21	3.6	21	75	3	87	37	24	17	20	1.93
373264--373320	21	2.7	21	97	0	105	29	0	28	42	1.56
376401--376443	9	4.8	9	85	0	59	18	44	13	23	1.86
383898--384070	88	2.0	88	97	0	328	28	20	19	31	1.97
386575--386635	19	3.2	19	88	0	77	18	13	14	54	1.72
386572--386639	19	3.6	19	87	0	73	19	13	13	54	1.71
395560--395632	36	2.0	36	97	0	137	38	24	12	24	1.90
399139--399247	52	2.1	52	100	0	218	33	10	11	45	1.73
400186--400217	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401208--401253	14	2.9	16	84	15	69	30	0	0	69	0.89
408026--408078	23	2.3	23	80	0	61	28	22	28	20	1.99
419144--420587	481	3.0	481	99	0	2872	30	16	16	36	1.91
421671--421705	15	2.3	15	100	0	70	25	45	8	20	1.79
421990--422049	28	2.1	28	93	0	102	28	23	5	43	1.74
422284--422320	17	2.2	17	90	0	56	16	24	16	43	1.87
424428--424466	20	2.0	19	85	14	53	38	2	5	53	1.37
426112--426179	33	2.1	33	91	0	109	39	17	35	7	1.78
433847--433916	36	1.9	35	83	16	90	51	4	0	44	1.21
435011--435124	57	2.0	57	84	5	151	39	18	10	31	1.85
443141--443230	25	3.2	27	73	21	78	56	0	2	41	1.11
443152--443209	28	2.2	27	87	9	84	58	0	1	39	1.08
443141--443232	28	3.3	27	78	15	80	55	0	2	42	1.12
443192--443262	25	2.8	26	77	16	76	50	0	5	43	1.25
443209--443266	20	2.7	20	77	17	62	50	0	6	43	1.29
443209--443268	22	2.7	23	72	27	65	50	0	6	43	1.28
443507--443624	39	3.1	38	75	17	113	47	1	13	37	1.53
446876--446906	14	2.1	15	94	5	55	61	6	3	29	1.37
448346--448395	23	2.3	22	83	13	59	60	4	4	32	1.34
450001--450045	15	3.0	15	93	0	72	51	0	0	48	1.00
450016--450100	33	2.4	36	88	7	122	42	0	8	49	1.32
450143--450202	31	1.9	31	90	6	95	45	11	3	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450793--450826	15	2.3	15	90	5	52	52	0	0	47	1.00
454745--454902	21	7.8	20	72	7	86	38	25	17	18	1.92
454869--455023	40	3.8	40	82	4	186	37	26	18	18	1.93
454869--455022	20	7.7	20	80	7	168	37	26	18	18	1.93
455405--455475	33	2.2	33	92	0	115	11	22	18	47	1.80
455602--455722	19	6.8	19	70	19	109	10	23	19	45	1.82
455619--455675	14	3.7	14	75	20	60	8	24	22	43	1.81
455602--455722	33	3.5	33	93	6	188	10	23	19	45	1.82
457420--457888	93	5.1	93	99	0	922	21	12	19	46	1.83
457936--458064	19	7.3	19	75	17	125	45	28	17	8	1.77
457972--458064	33	2.8	32	91	4	150	46	27	18	7	1.76
457936--458064	52	2.5	52	74	14	140	45	28	17	8	1.77
458060--458178	19	6.8	19	75	18	123	10	20	22	47	1.80
458082--458138	14	3.7	14	77	20	60	10	21	22	45	1.82
458065--458157	33	2.8	33	95	0	168	10	20	21	47	1.80
460120--460155	14	2.6	14	95	0	63	33	0	22	44	1.53
460262--460359	19	5.4	19	84	13	143	45	17	22	14	1.84
460262--460378	53	2.2	53	96	1	218	43	17	24	13	1.86
460368--460556	19	10.7	19	78	17	219	15	21	17	45	1.85
460368--460570	52	3.9	52	86	10	281	14	21	18	45	1.85
460425--460570	33	4.2	33	81	13	195	13	21	18	46	1.83
462959--463005	24	2.0	24	87	8	69	38	21	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463688--463997	20	15.5	20	87	1	352	20	17	24	37	1.94
463984--464066	21	4.0	21	73	6	78	25	16	24	33	1.96
463964--464062	42	2.4	43	77	11	100	21	18	23	37	1.94
464322--464374	25	2.2	23	75	15	54	56	5	1	35	1.34
472373--472447	23	3.3	23	92	0	132	24	28	24	24	2.00
473011--473041	11	2.8	11	100	0	62	6	9	58	25	1.54
486013--486042	15	2.0	15	100	0	60	46	20	0	33	1.51
498237--498351	60	1.9	60	80	7	135	35	13	11	40	1.80
500593--500623	2	16.0	2	93	6	55	48	0	0	51	1.00
500718--500758	19	2.2	19	100	0	82	29	24	21	24	1.99
512842--512869	8	3.5	8	100	0	56	39	0	10	50	1.37
516385--516425	9	4.4	9	90	3	64	85	0	2	12	0.70
516379--516439	9	7.0	9	85	5	63	80	0	8	11	0.91
517358--517785	55	7.9	55	88	2	587	29	15	27	26	1.96
517365--517785	108	3.9	110	90	3	613	30	15	27	26	1.96
517365--517785	163	2.6	164	86	4	582	30	15	27	26	1.96
522065--522109	23	2.0	23	86	4	65	51	2	0	46	1.13
522253--522285	16	2.1	16	94	5	59	51	6	9	33	1.58
526170--526249	3	27.0	3	78	12	85	32	2	0	65	1.06
526170--526249	32	2.4	32	83	8	99	32	2	0	65	1.06
531099--531193	31	3.1	31	80	3	111	34	21	17	26	1.95
531327--531366	21	1.9	21	85	10	55	40	10	5	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531850--531994	64	2.2	65	84	7	179	28	16	20	34	1.94
545347--545376	15	2.0	15	100	0	60	46	0	6	46	1.29
558016--558254	120	2.0	121	89	5	369	28	16	16	38	1.91
560293--560333	20	2.0	20	100	0	82	34	31	9	24	1.88
570489--570528	21	1.9	21	89	0	62	42	2	15	40	1.60
579424--579493	25	2.7	25	79	18	72	51	0	4	44	1.21
579444--579497	21	2.3	23	87	12	76	51	0	5	42	1.25
580355--580430	31	2.5	31	84	4	91	43	14	10	31	1.79
582022--582052	16	1.9	16	93	0	53	32	12	3	51	1.56
591155--591247	21	4.6	20	78	4	96	38	18	24	18	1.92
591152--591247	41	2.3	41	98	0	183	39	17	23	18	1.92
591155--591247	20	4.6	20	78	4	96	38	18	24	18	1.92
591174--591308	41	3.3	41	81	6	123	37	20	21	20	1.94
591236--591329	20	4.7	20	80	2	89	34	24	18	23	1.96
591887--591931	19	2.4	19	92	0	72	48	26	15	8	1.74
591927--592148	19	12.1	19	80	12	207	12	21	21	44	1.85
592038--592125	33	2.6	33	92	1	140	11	25	25	38	1.89
594202--594268	21	3.2	21	66	6	55	23	35	20	19	1.95
594146--594268	42	2.9	42	80	4	106	22	35	17	23	1.95
595625--595660	14	2.6	14	95	0	63	30	0	25	44	1.54
595819--595902	19	4.7	19	81	14	115	13	22	19	45	1.84
595823--595922	52	1.9	53	89	2	157	15	22	20	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599661--599697	14	2.6	14	95	0	65	51	21	0	27	1.48
600248--600284	14	2.6	14	86	0	56	48	21	0	29	1.50
600815--600851	14	2.6	14	86	0	56	48	21	0	29	1.50
599304--601097	567	3.1	570	95	3	3280	37	19	11	31	1.88
602711--602862	14	8.9	18	74	20	130	44	23	20	11	1.83
602710--602862	32	4.5	34	81	9	147	45	23	20	11	1.83
602713--602843	19	7.5	19	77	18	90	42	23	21	12	1.86
602752--602862	32	3.4	32	94	1	195	47	23	18	9	1.78
602891--602948	14	3.9	14	72	16	53	10	15	24	50	1.75
602874--602964	32	2.8	33	89	3	148	12	17	21	48	1.80

Tables:   1   2   3   4