genome.fa.s8823.2.7.7.80.10.50.1000.3.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: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1111368

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 638 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)
398605--398683	41	1.9	41	81	2	95	21	18	24	35	1.96
398580--398683	42	2.5	43	79	4	115	22	21	24	32	1.98
397366--400006	711	3.7	711	80	7	2741	32	15	17	33	1.92
399377--399421	20	2.2	20	100	0	90	31	28	22	17	1.97
397366--400006	239	11.1	238	79	6	2680	32	15	17	33	1.92
404268--404603	59	5.7	59	90	1	530	31	22	11	34	1.90
404928--404964	19	2.0	19	94	5	67	21	40	10	27	1.86
404939--405113	94	1.9	95	90	1	280	28	28	14	28	1.96
411182--411402	59	3.7	59	91	0	352	32	21	11	34	1.89
411727--411783	22	2.7	21	89	7	89	24	28	14	33	1.94
411765--411966	94	2.1	95	83	3	248	29	25	14	30	1.95
415787--415827	21	1.9	22	90	5	66	51	9	9	29	1.67
420770--420968	6	33.7	6	82	11	198	43	16	5	35	1.70
420909--420942	16	2.1	16	94	0	59	47	20	0	32	1.51
430333--430518	75	2.5	73	77	6	169	44	5	6	43	1.54
430347--430509	37	4.4	37	79	4	166	44	5	5	44	1.50
433011--433422	205	2.0	205	100	0	824	36	6	13	43	1.70
437349--437470	61	2.0	61	83	3	156	22	13	29	33	1.93
437530--437571	20	2.1	20	90	0	66	16	9	26	47	1.77
437643--437704	31	2.0	31	90	0	97	40	9	17	32	1.82
437597--437739	75	1.9	76	88	1	216	40	9	18	30	1.83
437673--437815	46	3.2	45	95	3	252	38	6	22	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440456--440570	6	18.3	6	75	16	76	78	2	15	3	1.00
440473--440565	15	5.9	15	82	10	98	78	2	16	3	0.98
440471--440571	30	3.2	31	80	15	127	78	1	16	2	0.97
440456--440565	50	2.2	49	84	9	134	78	2	15	3	1.01
440459--440572	15	7.3	15	77	14	90	78	2	14	3	0.99
443431--443469	14	2.8	14	92	0	60	30	17	25	25	1.97
444585--444703	61	2.0	60	80	9	134	27	15	25	31	1.95
444801--444902	45	2.3	45	89	0	159	42	6	19	31	1.78
454998--455101	40	2.6	40	82	0	127	36	12	16	34	1.86
456379--456427	20	2.5	20	86	3	64	30	14	4	51	1.61
458609--458766	37	4.3	38	76	7	130	43	5	8	43	1.56
461752--461776	13	1.9	13	100	0	50	48	16	0	36	1.46
461829--461883	23	2.4	23	96	0	101	61	7	7	23	1.47
464104--464220	45	2.6	45	84	0	135	36	11	28	23	1.90
466736--466796	17	3.5	17	86	4	77	29	18	11	40	1.85
466794--466845	18	2.9	17	85	2	68	25	7	17	50	1.72
470947--470971	9	2.8	9	100	0	50	8	12	8	72	1.29
475619--475659	19	2.2	19	100	0	82	36	9	31	21	1.86
488022--488174	79	1.9	79	91	0	252	35	9	25	29	1.87
488149--488456	45	6.8	45	87	0	409	41	10	18	29	1.83
488151--488456	135	2.3	135	87	0	450	41	10	18	29	1.84
490965--490995	2	16.0	2	93	6	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494162--494260	51	1.9	51	88	8	148	36	11	14	38	1.81
496116--496231	58	2.0	58	100	0	232	43	13	12	31	1.81
499312--499420	29	3.8	29	97	0	200	44	14	16	24	1.86
515174--515208	13	2.6	14	86	9	54	71	8	11	8	1.31
517385--517435	3	17.0	3	84	8	68	33	0	0	66	0.92
517391--517442	24	2.1	25	85	3	70	36	1	0	61	1.07
519545--519588	22	2.0	22	81	0	52	29	4	13	52	1.60
521096--521156	32	2.0	32	90	6	99	14	16	9	59	1.61
524108--524168	30	2.0	31	83	3	79	65	14	14	4	1.43
524139--524172	12	2.9	11	87	12	50	70	11	11	5	1.32
525363--525406	4	11.5	4	90	9	74	50	25	0	25	1.50
525790--525874	38	2.3	36	84	7	116	30	17	12	38	1.88
525895--526133	105	2.3	102	83	7	288	31	20	11	37	1.88
526079--526197	36	3.4	36	81	4	118	31	21	12	35	1.90
526445--526519	29	2.7	28	85	4	98	30	8	17	44	1.77
526471--526534	27	2.3	27	81	7	67	32	6	12	48	1.66
526406--526632	119	1.9	121	86	7	329	28	11	14	44	1.81
526445--526800	175	2.0	177	92	3	594	27	10	15	46	1.79
526558--526827	27	9.5	27	75	15	197	27	10	15	46	1.78
526740--526804	28	2.3	27	82	7	76	30	9	15	44	1.78
526745--526827	26	3.1	25	80	11	76	28	9	14	46	1.76
526619--526856	119	2.0	121	94	1	426	28	11	14	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526909--527045	30	4.3	30	75	13	114	36	10	11	40	1.77
526962--527220	37	7.6	36	66	19	164	31	11	10	45	1.76
526932--527219	67	4.3	67	93	3	467	31	12	10	45	1.76
527456--527685	66	3.5	66	82	8	242	30	16	11	41	1.84
528191--528494	46	6.9	44	73	11	203	26	29	19	24	1.98
528183--528364	89	2.1	89	97	1	348	25	29	19	25	1.98
528244--528494	129	1.9	130	95	0	459	26	30	19	24	1.98
528208--528525	43	7.2	43	69	15	161	26	29	18	25	1.98
528696--528746	3	17.0	3	84	8	68	33	0	0	66	0.92
528702--528753	24	2.1	25	85	3	70	36	1	0	61	1.07
530856--530899	22	2.0	22	81	0	52	29	4	13	52	1.60
536765--536794	12	2.5	12	100	0	60	16	16	0	66	1.25
537678--537725	20	2.5	20	86	10	64	47	4	16	31	1.65
546577--546620	20	2.2	20	87	0	61	36	15	20	27	1.93
547670--547754	42	2.0	42	97	0	161	38	23	20	17	1.93
550484--550607	63	2.0	63	90	0	194	33	24	8	33	1.86
551182--551221	15	2.7	15	96	0	71	10	42	0	47	1.37
553176--553215	19	2.0	20	85	9	55	35	17	0	47	1.48
564734--564813	31	2.6	31	91	0	124	31	2	35	31	1.71
567842--568083	33	7.2	32	73	13	134	16	9	32	41	1.80
567894--567983	31	2.9	32	80	6	96	26	11	23	38	1.88
567974--568076	39	2.8	36	84	7	120	11	7	37	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572951--573047	30	3.2	29	80	2	104	22	18	8	50	1.73
573510--573562	20	2.7	20	93	0	88	24	28	20	26	1.99
574149--574293	19	8.1	19	75	16	139	12	23	19	44	1.84
574149--574285	52	2.6	52	91	1	211	12	23	20	43	1.85
574204--574268	33	2.0	33	90	0	103	12	24	21	41	1.87
575745--575875	63	2.1	63	100	0	262	20	18	37	23	1.94
576042--576228	91	2.0	89	90	6	293	21	11	19	48	1.80
576448--576650	42	4.9	41	78	4	183	23	36	17	22	1.95
576584--576650	21	3.2	21	64	6	55	25	35	19	19	1.95
576445--576620	84	2.1	84	96	0	325	22	37	16	23	1.93
576445--576650	84	2.5	84	91	1	288	23	36	17	22	1.95
578003--578038	14	2.6	14	95	0	63	30	0	25	44	1.54
578216--578346	19	7.7	19	66	23	94	14	22	19	42	1.88
578220--578346	33	3.9	32	87	8	193	14	22	19	42	1.88
578213--578345	66	2.0	66	97	0	248	16	22	19	41	1.90
580638--580662	12	2.1	12	100	0	50	0	28	0	72	0.86
581878--581967	20	4.6	20	87	1	128	34	26	23	15	1.95
581993--582057	19	3.7	19	86	13	95	13	21	18	46	1.84
582063--582101	20	2.0	20	94	0	69	12	10	30	46	1.75
582184--582220	14	2.6	14	86	0	56	48	21	0	29	1.50
584086--584132	20	2.3	20	85	0	58	40	25	19	14	1.90
584098--584153	20	2.8	20	81	2	69	39	21	23	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584142--584199	14	3.9	14	79	16	71	48	24	17	10	1.78
584126--584204	32	2.4	33	95	2	142	46	22	18	11	1.81
584233--584290	14	3.9	14	79	16	71	10	17	24	48	1.78
584216--584306	32	2.8	33	94	3	166	12	18	21	47	1.81
584291--584345	20	2.8	19	83	8	65	16	23	23	36	1.94
584826--584870	18	2.5	18	88	0	72	13	15	44	26	1.83
586190--586248	20	3.0	20	84	0	73	44	22	16	16	1.87
586509--586551	21	2.0	22	95	4	79	18	13	46	20	1.83
586719--586853	20	6.7	19	78	9	99	25	17	23	34	1.96
586719--586856	61	2.3	61	83	0	177	24	16	23	35	1.95

Tables:   1   2   3   4   5   6