genome.fa.s8959.2.7.7.80.10.50.1000.3.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2431 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)
381865--381964	27	3.5	27	76	10	92	55	4	2	39	1.30
381920--381964	14	3.3	14	78	6	56	55	4	0	40	1.20
382923--383394	43	10.9	43	73	13	316	49	6	18	25	1.71
382924--383394	86	5.5	85	73	13	363	49	6	18	25	1.71
386925--387377	183	2.5	182	85	3	595	24	21	14	39	1.91
386925--387377	91	5.0	91	85	1	584	24	21	14	39	1.91
388277--388341	5	13.0	5	76	12	62	0	23	0	76	0.78
388278--388365	31	2.9	30	76	15	90	3	17	0	79	0.86
388277--388370	17	5.2	17	68	21	57	3	18	0	78	0.88
403215--403266	18	2.9	18	100	0	104	28	17	26	26	1.97
410510--410592	26	3.3	27	79	16	97	44	0	1	54	1.08
410492--410650	64	2.5	64	96	1	291	42	0	1	55	1.10
410545--410629	38	2.2	38	85	12	111	44	0	1	54	1.07
410487--410642	14	12.2	13	68	18	78	42	0	1	55	1.11
411305--411364	31	1.9	31	93	0	102	41	8	8	41	1.65
416075--416111	16	2.3	16	100	0	74	13	10	18	56	1.66
417999--418046	22	2.4	18	80	19	51	41	0	4	54	1.20
418115--418375	129	2.0	130	99	0	515	29	19	14	36	1.92
422462--422500	12	3.4	11	85	7	51	33	2	0	64	1.08
422463--422497	11	3.1	11	91	4	52	31	2	0	65	1.07
424046--424092	18	2.6	18	78	18	53	23	10	4	61	1.46
424050--424089	18	2.4	17	84	12	55	22	10	5	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426111--426250	72	1.9	72	94	2	246	25	23	17	33	1.96
428579--428606	2	14.0	2	100	0	56	50	0	0	50	1.00
430653--430682	13	2.3	13	94	0	51	63	0	20	16	1.31
431090--431175	13	7.2	12	72	22	58	29	3	37	30	1.74
431072--431176	36	2.9	36	95	1	185	28	4	36	30	1.78
435567--435671	36	2.9	35	91	1	165	27	6	35	30	1.83
442815--443006	96	2.0	96	100	0	384	32	10	27	30	1.90
446056--446271	54	4.0	54	83	5	258	33	13	25	27	1.94
447063--448055	123	8.1	123	84	3	1103	38	15	19	25	1.91
449488--449521	11	3.0	11	91	4	50	29	2	0	67	1.05
449532--449576	2	23.0	2	86	4	65	53	0	0	46	1.00
452140--452178	20	2.0	20	95	5	71	30	0	20	48	1.50
453413--453449	13	2.9	13	84	15	51	54	2	13	29	1.53
453882--453930	18	2.7	18	84	12	73	18	24	30	26	1.98
461252--461332	41	2.0	41	92	0	135	43	16	16	24	1.87
463348--463380	10	3.3	10	100	0	66	60	21	0	18	1.36
464709--464753	22	2.2	20	84	8	54	0	28	6	64	1.19
477351--477375	9	2.8	9	100	0	50	40	0	48	12	1.40
484872--484916	22	2.2	20	84	8	54	31	17	4	46	1.68
486101--486168	7	9.7	7	75	12	50	79	5	13	1	0.98
486101--486168	20	3.2	20	80	14	66	79	5	13	1	0.98
486778--486828	22	2.3	22	96	0	93	35	27	11	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487391--487963	106	5.4	106	95	0	1011	34	25	17	22	1.96
487391--487963	213	2.7	212	94	0	1011	34	25	17	22	1.96
489576--489634	22	2.7	23	77	12	61	15	3	5	76	1.10
489626--489658	12	2.8	12	86	13	50	33	3	0	63	1.10
490072--490096	12	2.1	12	100	0	50	52	0	0	48	1.00
495336--495404	21	3.3	21	62	22	54	43	5	27	23	1.76
495328--495414	42	2.1	42	97	0	165	40	4	26	28	1.76
496760--496831	24	3.0	26	82	11	82	50	0	2	47	1.15
496786--496826	2	22.0	2	80	14	52	48	0	0	51	1.00
496785--496830	23	2.1	21	92	8	74	50	0	0	50	1.00
497465--497537	29	2.5	28	76	10	76	63	1	5	30	1.26
497507--497545	14	2.8	13	84	7	51	64	0	2	33	1.08
498662--498710	21	2.3	21	82	0	53	4	18	40	36	1.70
498778--498824	3	15.7	3	100	0	94	68	0	0	31	0.90
499414--499742	113	2.9	113	86	5	461	28	19	14	38	1.90
500018--500071	22	2.5	22	78	6	65	33	14	12	38	1.85
500680--500752	18	4.1	18	94	1	121	49	4	12	34	1.59
501706--501743	20	2.0	20	89	5	60	39	0	0	60	0.97
501815--501859	3	16.0	3	86	13	69	0	28	0	71	0.87
501815--501855	8	5.0	8	96	3	73	0	26	0	73	0.84
501815--501859	11	4.0	12	83	16	69	0	28	0	71	0.87
501815--501859	16	2.7	17	93	6	83	0	28	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503117--503160	22	1.9	23	90	9	72	36	0	38	25	1.56
504755--504813	29	2.0	29	83	9	75	40	5	20	33	1.74
504955--505488	271	2.0	264	95	3	955	39	7	18	34	1.79
507832--507878	18	2.6	18	93	0	85	34	10	12	42	1.78
508009--508171	41	4.0	41	95	0	290	23	16	17	42	1.88
514877--514915	18	2.2	18	86	4	53	76	0	2	20	0.90
516732--516786	19	2.9	18	86	7	74	60	3	0	36	1.15
516732--516787	3	18.0	3	81	7	67	60	3	0	35	1.14
517246--517448	40	4.8	41	70	12	137	26	19	30	24	1.98
517072--517497	129	3.3	128	79	5	455	26	17	28	27	1.98
519466--519558	41	2.2	40	80	12	100	32	20	12	34	1.91
519567--519812	51	4.8	51	91	0	402	21	22	18	37	1.94
521121--521201	1	81.0	1	75	0	72	1	11	0	87	0.60
521117--521201	10	8.2	10	77	12	91	1	11	0	87	0.61
521121--521200	21	3.8	20	83	6	97	1	11	0	87	0.60
521117--521202	23	4.0	22	82	11	106	1	12	0	86	0.64
528544--528623	3	26.7	3	92	5	135	63	1	0	35	1.02
530340--530448	14	7.9	14	73	1	67	44	27	2	24	1.67
530359--530433	28	2.7	28	93	0	123	46	25	2	25	1.66
530415--530451	7	5.3	7	93	0	65	40	40	0	18	1.51
530336--530451	28	4.2	28	79	1	81	43	30	2	24	1.68
530415--530457	14	3.1	14	93	0	68	39	39	0	20	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530526--530598	21	3.5	21	83	10	87	53	20	0	26	1.46
530526--530572	7	6.7	7	97	0	85	57	17	0	25	1.40
530533--530618	14	6.2	14	80	8	77	50	24	1	24	1.57
530583--530618	13	2.7	13	86	4	54	47	30	2	19	1.64
530287--530664	186	2.0	189	81	9	441	44	23	6	25	1.78
530596--530643	20	2.4	20	82	6	62	39	33	6	20	1.78
532128--532391	130	2.0	129	90	3	415	40	12	13	33	1.82
537147--537189	21	2.0	21	86	0	59	30	27	25	16	1.97
537169--537320	68	2.2	68	83	3	182	27	27	28	16	1.97
537623--537693	28	2.5	28	93	2	115	40	8	12	38	1.74
537707--537766	30	2.0	31	90	3	95	38	6	21	33	1.80
537986--538060	22	3.4	22	98	0	141	21	25	25	28	1.99
544087--544129	21	2.0	21	86	0	59	30	27	25	16	1.97
544109--544260	68	2.2	68	83	3	182	27	27	28	16	1.97
544562--544632	28	2.5	28	93	2	115	40	8	12	38	1.74
544646--544705	30	2.0	31	90	3	95	38	6	21	33	1.80
544925--544999	22	3.4	22	94	0	132	21	24	25	29	1.99
547826--547956	31	4.2	31	78	10	142	30	19	19	29	1.97
547940--548011	30	2.4	30	95	0	126	25	20	23	30	1.99
554169--554272	31	3.4	31	93	2	165	50	11	13	25	1.75
555940--556039	39	2.5	39	95	3	173	27	2	4	67	1.20
556089--556241	42	3.6	43	73	13	113	28	12	6	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562870--562905	13	2.8	13	86	0	54	69	0	5	25	1.10
563264--563301	6	6.7	6	88	11	62	81	0	0	18	0.69
564083--564731	200	3.3	199	80	7	683	26	16	21	35	1.94
564807--565148	115	3.0	112	79	7	328	20	20	21	37	1.94
565181--565259	37	2.1	37	88	4	115	15	15	25	44	1.85
569124--569247	64	1.9	64	82	6	153	37	22	17	22	1.94
570297--570338	15	2.8	15	85	0	57	40	0	16	42	1.48
570783--570827	23	2.0	23	95	0	81	20	28	22	28	1.98
574386--574434	25	2.0	25	84	8	64	65	8	2	24	1.31
575575--575964	43	9.1	42	76	6	250	28	15	22	33	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21