genome.fa.s5189.2.7.7.80.10.50.1000.3.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: VEPZ01005189.1 Hibiscus syriacus cultivar Beakdansim tig00011718_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1183632

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 686 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)
443727--443872	70	2.1	70	80	5	170	55	7	9	27	1.59
445117--445195	39	2.1	39	85	7	108	39	8	2	49	1.48
449431--449677	135	1.8	136	85	2	354	32	20	12	34	1.89
449699--449835	60	2.3	60	82	2	177	36	12	15	35	1.85
451202--451235	2	17.0	2	100	0	68	50	0	0	50	1.00
453006--453038	17	1.9	17	88	11	50	39	3	9	48	1.50
454457--454759	159	1.9	158	89	2	475	49	6	15	28	1.69
455654--455691	18	2.1	19	90	5	60	39	13	23	23	1.90
460060--460111	19	2.7	19	87	3	77	13	36	17	32	1.89
462763--462795	17	1.9	17	88	11	50	39	3	9	48	1.50
463921--463954	2	17.0	2	100	0	68	50	0	0	50	1.00
464251--464300	17	3.1	17	69	16	52	22	6	20	52	1.68
465977--466004	2	14.0	2	100	0	56	50	0	0	50	1.00
473274--473428	42	3.7	42	86	3	222	41	20	21	16	1.90
473274--473430	63	2.5	63	89	4	228	41	20	22	15	1.90
473274--473433	21	7.6	21	86	5	200	41	21	21	15	1.90
473673--473712	7	5.9	7	94	5	57	15	17	15	52	1.75
473673--473716	13	3.4	13	85	14	56	15	18	15	50	1.79
477261--477638	125	3.0	124	87	2	497	33	16	24	25	1.96
478839--479073	36	6.5	36	83	6	201	37	22	20	19	1.95
478835--479073	72	3.3	72	77	7	259	36	23	20	20	1.95
478826--479073	108	2.3	108	83	4	320	37	22	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479444--479883	51	8.5	51	87	6	537	32	19	24	23	1.97
479444--479842	206	1.9	206	89	4	626	33	19	24	22	1.97
479444--480337	51	16.8	54	81	12	455	31	17	25	26	1.97
479847--480214	55	6.8	55	87	3	523	29	14	27	28	1.95
479792--480163	108	3.4	108	90	3	552	29	15	27	27	1.96
479847--480214	163	2.3	163	89	3	555	29	14	27	28	1.95
479863--480214	108	3.2	107	92	2	553	30	14	27	28	1.95
479556--480350	55	14.9	54	78	11	194	30	16	25	26	1.97
486202--486274	30	2.4	30	97	0	137	19	8	30	42	1.80
490287--491694	106	13.3	106	94	1	2335	33	25	17	23	1.96
491689--491855	84	2.0	84	80	2	192	31	24	20	23	1.98
493418--493490	30	2.4	30	97	0	137	19	8	30	42	1.80
494101--494131	2	15.5	2	100	0	62	48	0	0	51	1.00
496125--496159	17	2.0	18	88	5	54	42	5	8	42	1.59
498133--498244	60	1.9	59	90	5	183	44	8	21	25	1.81
501228--501268	18	2.4	17	87	4	55	39	9	7	43	1.65
501237--501288	18	2.9	18	88	5	70	34	7	13	44	1.72
508915--508961	20	2.4	19	80	13	51	68	6	2	23	1.24
512880--512927	14	3.2	14	76	23	53	35	16	2	45	1.59
514806--514929	60	2.1	60	84	4	162	32	20	17	29	1.96
515218--515253	2	18.0	2	100	0	72	50	0	0	50	1.00
528812--528885	39	2.0	36	86	7	103	28	10	9	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538354--538507	48	3.2	47	86	3	218	30	35	9	24	1.88
540010--540044	15	2.2	16	90	5	54	37	0	0	62	0.95
539901--540283	187	2.1	177	88	7	556	45	8	3	42	1.52
540781--540814	15	2.3	15	90	10	52	29	2	0	67	1.05
541010--541064	17	3.1	17	73	21	51	52	1	1	43	1.22
542411--542490	39	2.1	39	82	13	96	52	3	0	43	1.19
542885--542909	13	1.9	13	100	0	50	32	8	44	16	1.76
542925--542965	18	2.3	19	87	8	59	36	0	0	63	0.95
544648--544735	3	28.0	3	82	17	92	31	2	0	65	1.05
544648--544735	34	2.6	33	89	10	110	31	2	0	65	1.05
544648--544726	34	2.2	36	93	6	135	31	2	0	65	1.06
544652--544735	23	3.7	22	84	12	109	30	2	0	66	1.04
544676--544748	23	3.2	23	81	11	62	30	2	4	63	1.27
545218--545261	22	2.0	22	82	13	54	70	2	13	13	1.26
546105--546132	2	14.0	2	100	0	56	50	0	0	50	1.00
554068--554099	2	16.0	2	100	0	64	50	0	0	50	1.00
557815--557864	19	2.6	19	84	12	66	14	14	24	48	1.80
557815--557862	20	2.4	21	86	10	66	14	14	22	47	1.81
561415--561470	28	2.0	28	100	0	112	28	7	14	50	1.69
561419--561478	28	2.1	28	90	6	95	25	10	15	50	1.74
565624--565673	20	2.5	20	81	18	61	14	16	26	44	1.85
571398--571744	174	2.0	172	96	3	644	42	10	7	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571902--571937	17	2.1	17	100	0	72	36	11	13	38	1.81
572589--572695	47	2.3	47	84	7	132	23	21	29	25	1.99
587429--587454	3	8.7	3	100	0	52	30	0	0	69	0.89
587936--587999	29	2.2	30	83	8	78	25	7	0	67	1.17
588268--588314	19	2.4	21	83	13	57	55	4	0	40	1.19
591106--591151	23	2.0	23	95	0	83	36	13	15	34	1.86
593131--593330	103	1.9	103	91	4	332	28	24	11	36	1.90
594967--595009	22	2.0	22	81	9	52	25	9	20	44	1.81
597984--598047	3	22.0	3	78	12	71	67	1	3	28	1.15
597986--598053	32	2.1	32	91	5	111	66	2	4	26	1.25
598258--598556	130	2.3	130	91	1	474	25	19	29	25	1.98
598291--598541	43	5.7	45	70	13	128	25	19	28	26	1.99
598420--598580	83	1.9	83	85	7	223	24	19	31	24	1.98
598623--598680	28	2.1	28	87	6	82	50	13	10	25	1.74
598687--598811	64	2.0	64	83	3	162	41	14	19	24	1.88
599015--599073	15	3.9	15	95	0	100	44	5	20	30	1.73
599230--599353	63	2.0	63	84	4	162	43	11	14	30	1.80
599448--599504	30	2.0	28	82	6	69	45	10	14	29	1.78
599587--599713	37	3.6	37	69	22	112	44	11	11	31	1.77
599534--599731	67	3.0	66	88	5	276	44	12	12	30	1.79
599707--599758	27	1.9	27	96	0	95	50	11	9	28	1.70
599846--599939	28	3.4	27	81	11	111	48	14	10	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600184--600287	36	3.0	36	83	4	133	35	11	20	32	1.88
600185--600303	36	3.4	36	80	6	120	36	12	21	30	1.90
600184--600315	70	1.9	69	80	10	151	34	12	19	33	1.90
600255--600494	105	2.3	104	84	6	301	38	11	20	29	1.88
600461--600597	36	3.8	36	82	5	170	35	13	19	31	1.90
600461--600595	71	1.9	72	87	4	202	34	13	20	31	1.91
600954--601001	20	2.4	20	89	0	78	25	0	27	47	1.52
602195--602236	12	3.6	11	87	9	57	4	14	11	69	1.34
602238--602287	12	4.0	12	80	10	64	2	14	8	76	1.10
602230--602281	26	2.0	26	92	0	86	1	19	9	69	1.26
602220--602261	19	2.2	19	91	0	66	2	19	9	69	1.28
604327--604387	32	2.0	32	93	6	108	60	9	14	14	1.58
608241--608296	3	19.0	3	78	10	62	66	1	3	28	1.19
608243--608310	32	2.1	32	89	5	102	67	2	4	25	1.23
612740--612866	67	1.9	67	83	6	168	39	7	20	32	1.81
613231--614139	204	4.5	205	91	2	1458	28	25	16	30	1.96
613231--614140	407	2.2	406	91	2	1472	28	25	16	30	1.96
615721--615853	23	5.7	22	70	20	69	43	0	1	54	1.15
615699--615774	31	2.4	31	79	18	86	47	1	0	51	1.09
615698--615770	30	2.5	28	75	20	69	46	1	0	52	1.09
615722--615835	23	4.8	23	75	15	92	43	0	1	53	1.17
615779--615854	24	3.1	24	78	15	66	39	0	1	59	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615853--615900	23	2.1	23	88	0	69	56	0	2	41	1.11
615954--616013	27	2.1	28	87	6	86	58	1	0	40	1.08
616195--616235	14	2.9	14	88	0	55	36	19	14	29	1.92
616237--616282	15	3.1	15	75	6	58	30	17	8	43	1.79
616225--616263	20	2.0	20	84	0	51	33	17	7	41	1.79
616604--616698	49	1.9	49	89	4	147	17	36	30	14	1.90
619288--619340	20	2.7	20	90	0	79	32	16	13	37	1.88
628610--628638	15	1.9	15	100	0	58	48	27	6	17	1.72
628767--629153	184	2.1	183	90	2	609	43	2	8	45	1.47
630416--630442	5	5.4	5	100	0	54	0	18	0	81	0.69

Tables:   1   2   3   4   5   6