genome.fa.s8184.2.7.7.80.10.50.1000.3.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: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1549336

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 844 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)
498859--498892	17	2.0	17	100	0	68	47	5	5	41	1.52
502432--502466	2	17.0	2	94	5	61	48	2	0	48	1.16
507917--508223	147	2.1	142	92	5	510	33	21	17	27	1.95
508718--508749	2	16.5	2	93	6	57	50	0	0	50	1.00
509593--509637	21	2.1	21	87	0	63	15	24	28	31	1.96
515754--515807	22	2.5	22	84	6	65	18	16	25	38	1.92
521357--521471	29	4.0	29	90	3	187	17	37	26	18	1.93
521485--521541	29	1.9	30	96	3	107	0	22	47	29	1.52
521489--521544	13	4.1	13	79	20	69	0	23	46	30	1.53
521810--521834	12	2.1	12	100	0	50	16	0	60	24	1.36
521871--521938	35	1.9	35	93	0	118	27	30	16	25	1.96
522373--522416	21	2.1	21	86	0	61	29	0	18	52	1.46
522814--522838	13	1.9	13	100	0	50	8	4	16	72	1.24
522910--522963	20	2.8	20	80	8	67	40	0	11	48	1.39
522903--522970	18	3.8	18	74	11	68	36	0	10	52	1.35
522910--522969	22	3.1	19	75	20	61	36	0	11	51	1.38
522934--522976	22	2.0	22	85	0	59	39	0	9	51	1.34
523226--523275	26	1.9	26	83	0	64	50	4	4	42	1.40
526153--526423	26	11.0	26	74	18	190	42	2	10	44	1.50
526179--526423	98	2.5	97	94	2	433	42	2	10	44	1.49
526098--526346	124	2.0	124	96	1	464	44	2	10	43	1.51
526343--526375	8	4.2	8	84	7	50	36	0	12	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526436--526477	14	3.1	14	86	3	59	45	2	4	47	1.36
526430--526503	38	1.9	38	83	5	96	45	4	5	44	1.45
526579--526643	14	5.2	13	75	17	50	38	7	7	46	1.61
526590--526623	11	3.2	11	83	8	52	38	8	5	47	1.59
526590--526633	21	2.1	21	86	0	61	40	9	4	45	1.56
526628--526660	17	1.9	17	100	0	66	36	6	9	48	1.60
528804--528834	15	2.1	14	94	5	53	54	6	0	38	1.26
528809--528855	16	3.0	16	84	9	53	59	10	0	29	1.31
528895--528976	34	2.5	34	84	9	100	48	12	0	39	1.41
529034--529145	42	2.6	43	76	9	122	48	11	0	40	1.40
529015--529104	46	1.9	47	84	10	123	47	11	0	41	1.39
529015--529117	46	2.2	47	83	10	122	48	11	0	39	1.40
529086--529173	41	2.2	39	78	10	88	46	10	1	42	1.45
529209--529247	16	2.3	18	86	8	55	56	5	0	38	1.22
529461--529568	50	2.2	50	93	4	186	22	18	38	20	1.93
529603--529697	29	3.3	29	95	0	163	23	32	30	13	1.93
529684--529755	32	2.2	32	90	0	117	8	30	30	30	1.87
529770--529807	19	2.0	19	100	0	76	10	21	36	31	1.87
533085--533140	25	2.2	25	79	17	71	58	0	0	41	0.98
538131--538211	32	2.6	32	86	2	110	37	4	12	45	1.63
538929--538958	11	2.7	11	94	0	51	43	0	0	56	0.99
539132--539166	18	2.0	17	94	5	61	42	5	0	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548937--549010	21	3.5	20	79	13	71	29	4	0	66	1.10
548943--549040	25	3.8	25	79	11	76	32	5	0	62	1.17
548972--549042	2	37.5	2	76	16	53	38	4	0	57	1.18
549069--549207	45	3.1	46	71	21	114	26	3	2	67	1.18
549171--549208	18	2.1	19	85	14	53	18	5	0	76	0.97
549189--549213	13	1.9	13	100	0	50	12	8	0	80	0.92
549200--549267	30	2.2	31	84	7	86	25	5	1	67	1.21
549200--549267	28	2.4	28	82	9	75	25	5	1	67	1.21
549316--549350	18	1.9	18	88	0	52	14	11	0	74	1.08
549395--549436	19	2.2	19	83	8	50	14	2	4	78	1.01
549404--549436	10	3.4	10	91	4	50	12	0	6	81	0.85
549419--549481	25	2.5	26	75	12	69	14	4	6	74	1.18
554236--554305	36	1.9	37	85	2	97	25	20	12	41	1.88
554334--554508	36	5.0	37	70	20	103	29	20	12	37	1.89
554236--554506	100	2.7	101	89	5	392	29	19	12	38	1.88
554241--554605	101	3.6	100	84	7	395	29	18	12	40	1.87
554421--554645	36	6.4	36	77	11	200	27	19	12	41	1.87
554241--554605	201	1.8	201	81	5	461	29	18	12	40	1.87
554441--554689	137	1.8	137	85	1	356	27	19	12	40	1.87
554607--554775	67	2.6	67	84	3	182	32	22	8	36	1.84
555708--555744	19	1.9	19	94	0	65	35	24	21	18	1.96
556985--557026	16	2.6	16	88	7	59	33	2	0	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557034--557073	14	2.7	14	84	7	53	32	2	0	65	1.06
556995--557068	21	3.6	22	72	25	65	28	5	0	66	1.14
557276--557345	36	2.0	35	81	13	83	25	2	5	65	1.28
557369--557407	18	2.1	19	86	13	55	17	12	0	69	1.19
557428--557526	19	5.4	18	72	14	55	19	3	4	73	1.12
557430--557483	27	2.0	27	85	10	74	20	1	1	75	0.98
557430--557512	19	4.6	17	73	17	62	19	3	3	73	1.13
557435--557513	9	8.6	9	74	19	65	18	3	3	73	1.14
557453--557529	20	4.0	19	69	22	54	16	2	5	75	1.10
557434--557529	28	3.4	27	74	16	81	18	3	4	73	1.12
570342--570378	19	1.9	19	89	10	58	48	5	0	45	1.25
585109--585460	32	11.1	32	86	3	487	28	17	19	33	1.95
586015--586058	21	2.1	21	91	0	70	25	25	25	25	2.00
588202--588309	39	2.8	38	85	4	128	37	12	0	49	1.48
594043--594085	21	2.0	22	86	4	61	25	0	4	69	1.07
595882--595916	2	17.5	2	100	0	70	51	0	0	48	1.00
603610--603697	24	3.7	24	84	0	113	23	18	20	37	1.94
609209--609252	3	14.7	3	100	0	88	68	0	0	31	0.90
609212--609269	12	5.0	11	91	2	53	70	0	0	29	0.87
609484--609508	2	12.5	2	100	0	50	52	0	48	0	1.00
616535--616599	23	2.8	23	95	0	112	40	21	4	33	1.74
616133--618447	489	4.8	488	91	4	3740	40	10	7	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617024--617096	23	3.2	23	90	0	110	38	20	5	35	1.76
617478--617550	23	3.2	23	92	0	119	38	21	5	34	1.77
617953--618025	23	3.2	23	90	0	110	38	17	6	36	1.77
621530--621586	30	1.9	30	88	0	87	64	8	5	21	1.41
622484--622514	15	2.1	15	93	0	53	45	0	0	54	0.99
624189--624297	24	4.6	24	79	2	121	10	11	19	58	1.61
624185--624297	47	2.4	47	83	1	127	10	11	18	59	1.60
624648--624686	19	2.0	21	85	10	55	56	2	2	38	1.27
628547--628610	24	2.8	24	76	21	75	29	20	29	20	1.97
641125--641158	6	6.0	6	86	13	54	35	47	0	17	1.48
642695--642733	19	2.0	21	85	10	55	56	2	2	38	1.27
644054--644133	20	4.0	20	70	14	65	32	23	18	25	1.97
644956--645015	24	2.5	24	83	0	84	25	18	18	38	1.93
645208--645240	14	2.5	13	86	13	50	48	24	21	6	1.72
645215--645241	14	1.9	14	100	0	54	44	29	18	7	1.77
646275--646389	20	5.8	20	92	0	176	30	20	20	29	1.97
646275--646389	60	1.9	60	92	0	194	30	20	20	29	1.97
646430--646487	20	2.9	21	82	10	77	12	17	27	43	1.84
646591--646646	29	1.9	29	85	0	76	46	17	0	35	1.49
646586--646648	15	4.3	15	77	4	65	46	15	0	38	1.47
648033--648126	21	4.5	21	74	4	82	20	19	37	23	1.94
648033--648126	42	2.2	42	84	3	118	20	19	37	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648108--648145	21	1.9	19	85	15	51	26	18	31	23	1.97
648063--648155	42	2.2	42	82	0	114	23	16	38	21	1.92
648631--648702	19	3.7	19	83	5	83	47	20	13	18	1.82
650701--650816	20	6.2	19	75	14	107	39	24	18	18	1.92
650700--650800	53	1.9	53	87	0	148	41	24	17	15	1.89
651195--651246	22	2.4	22	86	0	77	19	19	40	21	1.92
651406--651478	20	3.7	20	88	0	92	24	20	28	26	1.99
651446--651499	19	2.8	19	88	2	72	20	18	29	31	1.96
656763--656843	29	2.8	29	90	3	119	33	13	13	39	1.84
661508--661589	29	2.8	29	96	1	146	31	14	13	40	1.85

Tables:   1   2   3   4   5   6   7   8