genome.fa.s1701.2.7.7.80.10.50.1000.3.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: VEPZ01001701.1 Hibiscus syriacus cultivar Beakdansim tig00003403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  790467

Tables:   1   2   3   4   

This is table  3  of  4  ( 470 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)
399469--400255	156	5.0	157	98	0	1542	20	16	19	43	1.88
408054--408106	21	2.5	20	75	19	54	24	26	18	30	1.98
408503--408671	44	3.8	44	92	5	284	21	4	6	68	1.30
408501--408675	25	7.6	25	64	23	98	21	4	6	68	1.30
408503--408671	91	1.9	89	92	4	286	21	4	6	68	1.30
408508--408710	91	2.3	90	84	10	238	22	3	8	65	1.37
408671--408729	14	4.3	13	78	8	55	23	0	15	61	1.34
412996--413088	21	4.6	20	77	4	87	38	17	24	19	1.92
413013--413088	21	3.7	20	78	5	89	39	18	25	17	1.91
412993--413088	41	2.3	41	96	0	174	39	16	23	19	1.92
413077--413170	20	4.7	20	77	2	80	35	24	17	23	1.95
413074--413151	41	1.9	41	83	0	102	41	21	15	21	1.90
413575--413639	19	3.4	19	84	2	76	44	26	18	10	1.82
413635--413702	19	3.5	19	84	9	93	11	20	23	44	1.84
413688--413768	31	2.5	32	84	10	101	9	23	25	40	1.85
415595--415622	6	4.7	6	100	0	56	64	0	0	35	0.94
416678--417291	306	2.0	306	93	5	1053	30	11	12	45	1.79
419080--419119	21	2.0	21	85	14	57	50	5	7	37	1.53
420071--420096	2	13.0	2	100	0	52	0	50	0	50	1.00
425993--426026	9	4.0	9	85	14	54	79	0	0	20	0.73
425988--426026	16	2.5	16	91	4	62	79	0	0	20	0.73
425983--426024	20	2.0	21	86	13	61	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426183--426454	53	5.2	53	89	3	408	20	27	22	29	1.98
426183--426454	103	2.6	105	87	3	415	20	27	22	29	1.98
426831--426949	42	2.9	42	87	1	159	33	21	18	26	1.96
427002--427081	42	1.9	42	97	0	151	33	18	20	27	1.96
427044--427268	93	2.4	93	94	0	396	30	20	17	31	1.96
433848--433918	21	3.4	21	92	0	115	33	21	11	33	1.89
436008--436045	2	19.0	2	100	0	76	50	0	0	50	1.00
437728--438549	333	2.5	329	88	5	1180	44	4	7	44	1.52
438546--438594	26	1.9	26	91	4	82	51	0	0	48	1.00
437733--438576	331	2.6	324	85	8	1080	44	4	6	44	1.51
438551--438610	26	2.4	25	80	5	68	60	0	0	40	0.97
440917--440943	7	3.9	7	100	0	54	44	29	11	14	1.80
443027--443093	19	3.4	19	76	10	64	38	0	5	55	1.25
443022--443323	2	159.5	2	68	25	153	40	0	5	52	1.32
443022--443255	80	2.9	76	78	13	222	40	0	5	52	1.29
443022--443298	97	2.8	100	79	16	274	40	1	5	52	1.32
443027--443325	54	5.8	53	71	21	192	40	1	6	52	1.33
443020--443321	27	12.1	25	71	20	156	40	0	5	52	1.32
443710--443756	21	2.3	21	81	3	60	48	23	12	14	1.78
443815--443866	21	2.5	21	84	6	61	61	21	13	3	1.48
453287--453326	19	2.2	18	86	8	55	55	0	20	25	1.44
456717--456747	14	2.1	14	94	5	53	12	0	0	87	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456718--456780	33	1.9	33	86	0	90	22	1	0	76	0.88
456719--456800	19	4.4	19	71	8	62	21	1	2	74	1.01
458243--458462	2	114.0	2	63	24	64	47	2	4	45	1.36
458242--458462	13	16.5	13	69	21	74	47	2	4	45	1.36
458253--458341	30	2.9	30	90	6	126	49	2	3	44	1.31
458390--458464	28	2.8	28	82	8	93	45	2	5	46	1.40
459537--459570	17	2.0	17	100	0	68	35	35	0	29	1.58
459539--459570	8	3.9	8	92	8	55	37	34	0	28	1.57
460490--460516	14	1.9	14	100	0	54	48	0	7	44	1.31
460606--460653	19	2.5	20	82	3	62	29	12	6	52	1.63
462406--462450	20	2.3	20	88	3	65	42	4	31	22	1.73
462406--462479	19	3.8	19	75	10	69	43	2	28	25	1.68
462688--462716	4	7.2	4	100	0	58	24	0	24	51	1.48
462716--462749	14	2.3	15	85	15	52	52	0	0	47	1.00
462720--462749	14	2.1	15	93	6	53	53	0	0	46	1.00
462796--462850	2	28.0	2	96	3	103	49	0	0	50	1.00
462969--463011	20	2.1	21	86	4	61	46	6	11	34	1.67
463295--463344	23	2.1	24	92	3	84	46	4	0	50	1.20
463447--463656	30	7.2	30	94	3	358	44	6	2	46	1.44
463807--463848	16	2.7	16	92	3	68	7	9	14	69	1.37
464316--464375	20	2.8	21	80	10	68	45	5	10	40	1.60
464341--464383	13	3.3	13	75	12	52	46	2	6	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464341--464394	15	3.4	15	74	20	56	48	3	5	42	1.44
464432--464470	17	2.4	17	86	4	53	61	2	2	33	1.23
469054--469119	33	2.0	33	100	0	132	39	12	9	39	1.74
469412--469544	20	6.5	20	70	14	74	36	22	19	21	1.95
469475--469730	20	12.6	20	73	12	157	39	25	17	17	1.92
469493--469727	61	3.9	61	76	10	196	39	25	17	18	1.91
469475--469729	81	3.2	80	78	9	266	39	25	17	18	1.92
469536--469729	40	4.8	41	89	1	293	39	25	17	18	1.92
469999--470045	24	1.9	25	83	12	62	17	2	6	74	1.12
470265--470361	20	4.8	20	80	9	108	50	18	18	12	1.77
470326--470369	19	2.3	19	92	0	70	50	25	15	9	1.74
470390--470478	14	5.6	14	71	23	70	11	24	21	42	1.85
470373--470527	33	4.5	33	86	6	211	12	23	20	43	1.85
470463--470518	20	2.8	20	84	10	87	14	25	21	39	1.91
472190--472569	94	4.1	94	95	1	656	21	12	18	47	1.81
472617--472740	19	6.5	19	79	8	126	45	25	16	12	1.82
472617--472725	55	1.9	56	83	9	141	46	22	17	12	1.82
472617--472754	57	2.4	56	80	10	138	46	24	15	13	1.82
472657--472754	38	2.6	37	82	6	117	46	25	16	11	1.80
472751--472904	19	8.8	19	68	21	104	12	22	19	45	1.84
472775--472862	14	5.6	14	67	23	50	12	22	19	45	1.84
472754--472880	33	3.8	33	93	0	218	12	22	19	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473241--473329	42	2.1	42	80	0	106	21	37	16	24	1.94
474691--474726	14	2.6	14	95	0	63	33	0	22	44	1.53
474833--474891	19	3.4	19	71	22	65	47	18	22	11	1.81
474833--474912	33	2.4	33	89	0	115	48	20	20	11	1.79
474922--475088	33	4.8	33	78	9	190	14	19	19	46	1.84
474918--475089	19	9.7	19	64	20	95	14	19	19	45	1.84
477615--477666	24	2.2	24	82	0	59	36	21	19	23	1.95
478536--478576	20	2.0	20	95	0	73	34	17	21	26	1.95
478514--478604	40	2.3	41	77	11	100	30	17	17	34	1.93
478578--478698	20	5.9	20	79	6	109	21	17	23	38	1.93
478579--478697	61	1.9	62	84	5	161	21	16	23	38	1.93
478578--478698	41	3.0	40	78	6	127	21	17	23	38	1.93
478702--478755	20	2.7	20	100	0	108	14	20	25	38	1.91
478702--478815	20	5.7	21	77	8	78	17	18	27	36	1.93
480947--480995	25	2.0	25	84	8	64	36	10	22	30	1.87
483844--483875	16	2.0	16	93	0	55	28	0	0	71	0.86
484062--484117	3	18.3	3	75	17	53	37	0	1	60	1.07
484062--484117	15	3.5	15	85	14	60	37	0	1	60	1.07
484062--484113	18	2.9	18	91	5	79	38	0	1	59	1.08
485187--485407	31	7.2	31	95	1	399	34	15	11	38	1.83
486063--486239	64	2.8	64	79	5	169	25	19	21	32	1.97
486128--486280	64	2.4	64	83	6	177	26	22	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488977--489198	31	7.2	31	95	0	399	34	15	11	38	1.83
489064--489147	15	5.5	15	64	25	50	32	15	13	39	1.86
489896--490032	64	2.1	64	82	5	161	27	18	19	35	1.95
489923--490079	64	2.5	64	84	7	194	27	21	19	32	1.97
492771--492992	31	7.2	31	95	0	408	34	16	10	38	1.83
493713--493854	64	2.2	65	79	8	157	26	20	20	32	1.97
496480--496670	31	6.2	31	97	0	364	33	15	12	38	1.85
497331--497504	64	2.7	64	80	5	181	26	20	21	32	1.97
507093--507186	42	2.3	41	83	3	109	20	19	23	37	1.94
507341--507423	43	2.0	42	87	2	121	21	19	22	36	1.95

Tables:   1   2   3   4