genome.fa.s8235.2.7.7.80.10.50.1000.3.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: VEPZ01008235.1 Hibiscus syriacus cultivar Beakdansim tig00110879_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820011

Tables:   1   2   3   4   

This is table  3  of  4  ( 451 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)
471558--471597	14	3.1	13	82	10	55	60	0	0	40	0.97
472979--473081	3	33.7	3	85	7	136	61	0	1	35	1.14
474490--474571	39	2.1	39	100	0	164	32	23	7	36	1.82
481155--481230	22	3.4	23	74	15	88	61	2	5	30	1.31
481155--481242	44	2.0	44	97	0	167	60	2	4	32	1.30
487158--487198	16	2.6	16	100	0	82	29	7	19	43	1.78
487331--487368	12	3.2	12	88	0	58	15	15	15	52	1.75
488273--488315	21	2.0	21	86	0	59	32	30	23	13	1.93
488344--488388	22	2.0	22	86	4	63	31	33	26	8	1.87
489936--489998	23	2.7	22	80	4	72	19	25	26	28	1.98
494164--494489	161	2.0	162	97	1	618	24	13	26	35	1.92
494532--494573	21	2.0	21	90	0	66	11	28	40	19	1.87
494829--494858	13	2.3	13	94	0	51	63	0	3	33	1.11
495012--495053	5	8.4	5	79	10	50	76	2	0	21	0.90
495110--495170	22	2.8	21	80	7	68	70	3	1	24	1.11
496263--496313	3	17.3	3	84	11	70	66	0	1	31	1.03
496237--496314	14	6.2	12	74	20	63	67	1	2	28	1.11
496469--496619	37	4.2	36	89	9	209	45	7	2	44	1.45
496435--496619	37	5.5	33	82	14	186	44	7	2	44	1.46
496469--496621	70	2.1	74	85	8	217	45	7	2	44	1.45
496490--496673	37	5.3	35	77	16	145	42	8	4	43	1.57
496686--496717	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497324--498214	84	10.7	84	78	6	810	25	20	24	29	1.99
497324--498178	169	5.1	170	80	4	844	24	20	24	29	1.99
497332--498178	334	2.5	333	82	2	935	24	20	24	29	1.99
503244--503273	13	2.3	13	94	0	51	63	0	3	33	1.11
503427--503468	5	8.4	5	79	10	50	76	2	0	21	0.90
503530--503565	19	1.9	19	94	5	65	58	5	5	30	1.44
504534--504572	3	13.0	3	100	0	78	66	0	0	33	0.92
504654--504880	33	6.5	34	80	13	205	45	7	2	44	1.47
504751--504880	37	3.6	37	91	7	189	45	7	3	43	1.48
504751--504934	37	5.3	35	77	16	145	42	8	4	43	1.57
504946--504987	2	21.0	2	100	0	84	50	0	0	50	1.00
505039--505083	2	23.0	2	95	4	83	48	0	0	51	1.00
505415--505467	28	2.0	27	85	7	72	30	9	3	56	1.49
505909--505964	23	2.4	23	93	0	94	32	19	14	33	1.92
511287--511353	29	2.4	28	80	9	66	59	2	2	34	1.28
516734--517059	163	2.0	163	99	0	643	46	15	15	23	1.83
517395--517443	23	2.1	24	84	3	64	61	8	14	16	1.56
519467--519505	19	2.1	19	85	9	53	15	0	7	76	0.99
520573--520602	12	2.5	12	94	0	51	50	13	3	33	1.58
526676--526722	24	1.9	24	82	4	58	36	4	8	51	1.52
535860--536033	43	4.1	43	83	8	171	32	20	21	25	1.97
536085--536433	43	8.2	42	82	8	361	34	20	21	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536085--536433	168	2.1	170	84	7	460	34	20	21	22	1.97
536933--536987	20	2.8	20	86	10	85	54	5	9	30	1.54
539958--540180	41	5.4	41	83	3	268	38	17	17	26	1.92
539958--540180	83	2.7	82	82	3	268	38	17	17	26	1.92
539941--540180	124	1.9	125	87	0	356	37	17	17	26	1.93
540113--540257	41	3.5	41	83	4	168	32	19	18	29	1.96
549368--549403	18	2.0	18	88	0	54	30	2	2	63	1.22
552923--552984	32	2.0	32	96	3	117	14	14	9	61	1.57
557517--557576	27	2.2	28	88	8	88	35	8	13	43	1.74
557665--557795	30	4.1	31	71	18	108	32	12	13	41	1.82
557484--557752	147	1.9	142	92	3	448	32	12	13	40	1.83
557682--557850	67	2.5	67	95	0	302	30	13	11	44	1.79
557712--557832	37	3.5	36	68	23	105	32	12	11	43	1.78
557676--557892	67	3.3	66	88	3	285	29	12	12	44	1.80
557881--557942	25	2.3	27	76	17	67	22	12	14	50	1.77
558380--558630	101	2.5	102	94	2	427	36	13	11	38	1.81
558734--558910	66	2.7	65	75	7	162	27	18	15	38	1.91
558914--558990	28	2.6	28	80	17	86	27	14	11	46	1.79
558940--559010	28	2.5	28	84	4	90	25	14	12	47	1.79
559036--559353	40	7.5	40	71	16	212	25	31	18	23	1.98
559023--559319	46	6.9	45	73	15	216	25	30	19	23	1.98
559039--559349	129	2.4	129	96	0	559	25	31	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559554--559610	3	19.3	3	75	10	55	29	3	3	63	1.28
559555--559608	18	3.0	18	77	0	63	31	3	3	61	1.31
566241--566280	20	2.0	20	90	0	62	22	27	10	40	1.86
570482--570567	36	2.3	37	86	6	111	31	10	5	52	1.59
577500--577530	13	2.5	12	94	5	53	25	0	0	74	0.82
583663--583703	21	1.9	22	90	5	66	39	17	19	24	1.92
583872--583940	34	2.0	34	97	0	129	21	15	5	56	1.60
585199--585237	15	2.6	15	87	0	60	43	23	30	2	1.67
585198--585275	30	2.5	31	77	8	95	41	24	32	2	1.69
590385--590421	18	2.1	18	100	0	74	18	32	27	21	1.97
590906--590942	18	2.1	18	100	0	74	18	32	27	21	1.97
590356--591403	521	2.0	521	100	0	2096	37	23	15	23	1.93
594048--594086	6	6.8	6	88	11	64	0	0	66	33	0.92
594050--594084	16	2.2	16	100	0	70	0	0	68	31	0.90
594048--594091	22	2.0	22	95	0	79	0	2	65	31	1.05
594050--594091	16	2.6	16	92	0	57	0	2	66	30	1.04
596381--596434	24	2.2	24	83	0	72	33	24	22	20	1.97
596434--596496	25	2.6	24	84	2	72	30	19	25	25	1.98
598961--599019	22	2.7	21	84	10	66	45	1	0	52	1.10
599009--599062	23	2.3	23	90	6	83	55	1	1	40	1.21
599188--599232	23	2.0	23	86	0	63	53	2	2	42	1.25
599301--599350	14	3.6	14	75	0	55	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599499--599533	14	2.5	14	90	0	52	37	8	17	37	1.80
602342--602410	29	2.5	28	83	9	79	56	7	0	36	1.27
607772--608195	210	2.0	210	99	0	830	33	16	24	26	1.96
610414--610471	29	2.0	29	96	0	107	22	13	25	37	1.91
611157--611192	15	2.3	16	90	4	56	0	55	0	44	0.99
613978--614045	31	2.2	31	89	2	102	32	22	8	36	1.85
623369--623446	15	5.2	15	77	9	79	42	20	3	33	1.70
630077--630117	16	2.6	16	88	3	57	31	19	9	39	1.84
635977--636054	40	2.0	40	89	5	122	17	23	35	23	1.95
635991--636076	40	2.2	40	86	0	118	17	25	33	23	1.96
642043--642076	17	1.9	18	94	5	61	64	2	0	32	1.08
643166--643237	2	36.0	2	100	0	144	50	0	0	50	1.00
644715--645432	230	3.1	229	96	1	1311	44	7	8	38	1.64
645482--645528	21	2.3	20	86	13	69	57	10	14	17	1.65
646285--646343	23	2.6	23	88	0	91	37	5	20	37	1.75
645886--647224	476	2.8	482	96	1	2448	41	7	10	40	1.68
646759--646822	23	2.8	23	92	0	110	35	3	21	39	1.70
649520--649547	14	2.0	14	100	0	56	21	7	21	50	1.72
653314--653993	339	2.0	339	99	0	1351	26	16	20	35	1.94
657837--657897	27	2.3	27	97	0	113	31	22	14	31	1.94
662098--662129	2	16.0	2	100	0	64	50	0	0	50	1.00
663718--663751	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663920--663945	2	13.0	2	100	0	52	50	0	0	50	1.00
674832--674899	23	3.0	23	88	0	100	27	23	22	26	1.99
675671--675714	14	2.9	15	75	18	54	4	13	29	52	1.60
679206--679235	14	2.1	14	93	0	51	40	6	20	33	1.78
683153--683293	58	2.4	58	95	0	246	37	23	11	27	1.89
683285--683323	20	2.0	20	85	10	53	23	20	17	38	1.93
689638--689698	32	2.0	31	87	6	88	31	9	21	37	1.86
693793--693898	3	34.7	3	84	3	140	36	0	1	61	1.07
702954--703175	114	1.9	114	94	0	390	32	13	20	32	1.92
705179--705397	54	4.1	54	91	2	325	40	15	21	22	1.91

Tables:   1   2   3   4