genome.fa.s7877.2.7.7.80.10.50.1000.3.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: VEPZ01007877.1 Hibiscus syriacus cultivar Beakdansim tig00110253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  614694

Tables:   1   2   3   4   

This is table  3  of  4  ( 420 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)
393478--393563	13	6.4	13	72	16	61	48	1	5	44	1.34
393452--393531	20	3.8	20	82	9	88	45	2	3	48	1.33
393471--393563	20	4.6	20	81	15	93	47	2	5	45	1.37
393547--393702	33	5.1	33	79	19	174	42	7	9	41	1.65
393575--393617	22	2.0	22	86	9	61	48	6	4	39	1.51
393526--393651	55	2.4	53	87	4	182	45	6	9	38	1.62
393646--393957	20	16.2	20	69	21	159	41	6	9	42	1.63
393648--393965	18	16.7	18	70	21	125	40	6	9	43	1.64
393720--393960	38	6.3	38	75	18	239	41	6	9	42	1.63
393796--393884	24	3.4	24	72	19	70	40	7	8	42	1.65
393668--393966	155	1.9	155	97	0	571	40	6	9	43	1.63
393779--393892	55	2.1	55	86	0	156	40	7	8	43	1.63
394016--394081	33	2.0	32	88	2	96	50	6	6	37	1.52
394167--394304	11	12.5	11	65	19	56	48	2	2	46	1.29
394267--394304	11	3.5	11	88	0	58	44	2	2	50	1.30
394399--394467	22	3.2	21	80	15	88	46	5	2	44	1.42
394401--394467	20	3.2	20	78	15	73	46	5	2	44	1.43
394374--394473	42	2.5	41	85	11	127	45	6	3	46	1.43
394412--394479	20	3.3	20	76	12	75	44	4	2	48	1.38
394569--394703	51	2.6	51	84	2	164	19	33	26	20	1.97
397746--397785	21	2.0	21	90	5	64	20	20	37	22	1.94
400398--400450	21	2.6	21	80	11	58	18	20	35	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400398--400453	20	2.8	21	76	13	55	17	23	33	25	1.96
407248--407329	34	2.4	35	84	15	109	56	9	7	26	1.58
407546--407602	18	3.2	18	79	0	69	12	36	21	29	1.90
407559--407602	12	3.7	12	84	0	52	11	38	20	29	1.87
407550--407605	9	6.2	9	76	0	58	10	37	21	30	1.87
407947--407984	18	2.1	18	95	0	67	23	21	28	26	1.99
409469--409795	110	3.0	111	92	2	549	44	11	8	36	1.70
410328--411137	209	3.8	211	89	4	1195	29	11	8	50	1.68
442437--442513	23	3.3	23	90	0	127	20	10	53	15	1.71
442550--442605	21	2.7	21	80	2	69	10	23	32	33	1.89
442634--442680	3	15.3	3	95	4	85	68	0	0	31	0.90
442922--443279	137	2.6	137	91	2	544	27	18	15	37	1.91
443195--443867	244	2.8	244	84	9	828	26	19	14	39	1.90
443195--443874	121	5.7	120	83	9	785	26	19	14	39	1.90
443433--443891	123	3.9	112	81	11	425	26	19	15	38	1.91
445441--445489	6	8.7	6	79	20	61	12	14	0	73	1.10
445440--445494	16	3.4	16	95	5	101	10	14	0	74	1.07
457960--458013	23	2.3	23	87	0	90	22	12	51	12	1.74
458045--458106	21	3.0	21	83	2	81	9	20	33	35	1.86
459786--459833	26	1.9	25	83	8	62	29	12	2	56	1.48
463433--463553	63	1.9	63	87	0	179	26	20	21	31	1.98
465304--465471	84	2.0	83	98	1	327	42	17	11	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469815--469978	22	7.8	22	75	10	130	29	27	21	20	1.98
469815--469938	40	3.0	40	85	7	160	29	28	22	20	1.98
469815--469965	40	3.6	43	83	7	154	28	27	22	21	1.99
472510--472576	34	1.9	34	82	14	84	49	19	10	20	1.77
477079--477146	34	2.0	34	88	8	102	45	13	11	29	1.79
478341--478467	66	1.9	66	98	0	245	37	25	7	29	1.82
479467--479499	14	2.4	14	100	0	66	48	0	0	51	1.00
481810--481840	16	1.9	16	100	0	62	32	6	3	58	1.40
482900--482961	32	2.0	32	96	3	117	14	14	9	61	1.57
485392--485470	26	3.3	25	68	21	78	24	21	10	44	1.83
485399--485470	20	3.3	20	68	20	63	23	22	11	43	1.85
486087--486124	11	3.4	11	89	7	58	71	10	13	5	1.30
487309--487346	4	10.0	4	83	11	53	50	23	0	26	1.50
487893--488010	36	3.3	36	83	8	159	33	16	12	36	1.87
487893--488027	71	1.9	72	85	1	191	32	19	14	34	1.91
487934--488252	167	1.9	166	84	7	423	32	17	11	37	1.87
488113--488194	36	2.3	36	78	4	94	36	19	12	31	1.89
488168--488406	105	2.3	102	84	7	297	30	20	11	37	1.88
488001--488633	273	2.3	267	85	6	810	31	17	11	38	1.86
488352--488471	36	3.4	36	79	6	113	30	20	12	35	1.90
488785--488882	29	3.5	29	86	5	139	26	11	15	46	1.79
488771--488894	29	4.4	28	83	8	137	25	10	15	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488891--488993	52	2.0	53	94	1	181	32	13	18	35	1.90
488981--489044	30	2.1	30	91	0	101	35	9	15	39	1.80
489867--489955	28	3.1	28	83	4	99	28	12	14	44	1.81
489984--490351	46	8.5	45	72	14	238	25	29	18	26	1.98
490026--490355	40	7.8	41	70	15	197	24	30	17	26	1.97
489974--490446	130	3.6	130	88	3	655	25	29	19	25	1.98
490369--490537	91	1.8	93	89	2	270	24	26	24	24	2.00
492807--492837	16	1.9	16	100	0	62	32	6	3	58	1.40
493648--493676	2	15.0	2	92	7	51	48	0	0	51	1.00
493649--493674	13	2.0	13	100	0	52	46	0	0	53	1.00
494554--494640	38	2.3	37	90	5	131	41	37	8	12	1.73
494504--495066	243	2.2	245	85	10	766	36	26	11	24	1.90
494797--494875	37	2.1	38	88	6	117	41	32	10	15	1.80
495929--495970	21	2.0	21	86	9	59	59	0	4	35	1.19
497071--497126	28	2.0	28	86	6	78	53	0	0	46	1.00
497394--497441	25	1.9	25	83	8	62	50	0	0	50	1.00
512632--512752	35	3.4	35	70	13	102	41	14	15	28	1.87
512632--512773	72	2.0	72	88	2	214	40	16	16	27	1.89
512632--512760	36	3.6	36	72	13	113	39	15	16	28	1.89
512658--512772	36	3.2	35	68	14	90	40	17	14	26	1.88
515715--515755	17	2.4	18	80	12	50	39	36	7	17	1.77
515945--515993	16	3.0	16	77	13	55	30	0	2	67	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517860--517907	3	16.0	3	86	0	69	29	2	37	31	1.69
517860--517907	18	2.7	18	96	0	87	29	2	37	31	1.69
524297--524351	21	2.7	20	75	8	65	21	23	18	36	1.95
524341--524514	21	8.7	20	74	11	88	36	18	20	25	1.95
524341--524413	21	3.5	21	92	1	112	38	16	23	21	1.93
524379--524532	39	3.9	39	72	12	136	35	19	19	25	1.95
524341--524531	20	9.6	19	75	11	100	35	18	20	25	1.95
525076--525112	14	2.6	14	95	0	65	40	24	24	10	1.87
525129--525188	19	3.4	18	73	21	56	11	23	20	45	1.83
525146--525201	14	3.6	14	74	21	58	8	25	23	42	1.82
525129--525201	33	2.2	33	95	0	128	10	24	20	43	1.84
525146--525222	33	2.3	34	90	2	120	10	22	23	44	1.83
525129--525250	20	6.8	19	70	20	93	10	22	19	46	1.81
526938--527242	94	3.3	94	92	4	496	21	12	18	47	1.82
529104--529139	14	2.6	14	95	0	63	33	0	22	44	1.53
529246--529331	19	5.1	18	66	25	62	47	19	22	10	1.79
529264--529320	14	3.7	14	70	20	51	45	22	22	8	1.80
529246--529366	33	3.7	33	91	2	181	47	22	19	9	1.78
529342--529387	19	2.4	19	88	0	74	45	23	17	13	1.83
529383--529519	19	7.7	19	71	16	114	11	23	20	44	1.84
529383--529519	52	2.6	52	90	1	202	11	23	20	44	1.84
529473--529565	20	4.7	20	70	13	75	21	18	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532894--532990	21	4.7	21	74	12	92	18	18	22	40	1.92
532839--532951	41	2.8	42	87	4	151	23	18	26	31	1.97
532814--533010	20	9.7	20	79	9	157	22	19	24	33	1.97
532841--533052	41	5.2	41	76	10	130	23	19	22	34	1.97
532896--533034	62	2.2	62	98	0	269	19	19	21	39	1.93
532896--533052	62	2.5	62	92	2	226	20	20	21	38	1.94
532937--533071	41	3.3	40	74	13	132	21	21	18	38	1.93
532937--533071	21	6.5	21	81	5	134	21	21	18	38	1.93
533061--533114	22	2.5	22	84	3	83	33	18	27	20	1.96
533815--533883	30	2.2	32	82	12	90	26	15	21	36	1.94

Tables:   1   2   3   4