genome.fa.s9462.2.7.7.80.10.50.1000.72.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  72  of  91  ( 10815 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)
16273230--16274182	20	42.7	20	68	21	435	43	11	23	21	1.85
16273609--16274187	93	6.4	91	84	7	718	44	11	23	21	1.84
16280700--16281522	81	10.1	81	86	2	1047	33	11	23	31	1.90
16280700--16281508	244	3.3	242	87	2	1089	33	11	23	31	1.90
16288331--16288377	2	23.5	2	91	0	76	0	0	48	51	1.00
16288387--16288421	8	4.4	8	96	0	61	25	8	22	42	1.82
16288379--16288417	16	2.4	16	82	0	51	25	7	23	43	1.80
16300924--16300983	21	2.9	21	82	7	70	11	25	40	23	1.88
16300919--16300983	20	3.2	20	75	14	71	12	27	36	23	1.90
16307461--16307542	40	2.0	40	100	0	164	23	17	26	32	1.96
16307646--16307767	48	2.6	45	80	10	127	42	7	20	29	1.79
16314736--16314848	46	2.4	47	80	5	131	42	7	19	30	1.78
16325398--16325429	16	1.9	17	93	6	57	37	21	3	37	1.70
16330835--16330901	34	1.9	34	82	14	84	20	11	19	47	1.81
16334961--16335006	23	2.0	24	82	4	58	13	10	4	71	1.27
16341514--16341796	45	6.3	45	87	0	395	22	22	10	44	1.84
16346736--16346771	18	2.0	18	94	0	63	41	27	13	16	1.87
16360543--16360823	45	6.2	45	87	0	373	22	19	11	46	1.82
16361189--16361363	95	1.8	95	84	4	237	26	21	12	40	1.88
16363900--16364066	30	5.6	30	77	7	146	56	14	13	14	1.67
16364016--16364076	29	2.1	30	90	3	97	59	13	13	14	1.63
16366310--16366434	37	3.4	37	85	4	162	43	11	14	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16367617--16367668	2	26.5	2	92	3	88	48	0	1	50	1.12
16370411--16370464	22	2.5	22	90	0	81	22	11	9	57	1.61
16372384--16372536	30	5.1	29	78	7	146	58	9	16	16	1.62
16373130--16373155	2	13.0	2	100	0	52	50	0	50	0	1.00
16374033--16374133	3	32.3	3	87	7	123	64	0	0	34	1.00
16382334--16382374	21	2.1	18	86	13	55	34	0	0	65	0.93
16388023--16388081	26	2.3	26	85	5	75	27	1	3	67	1.16
16388119--16388247	6	20.7	6	68	18	50	20	2	1	75	0.99
16388090--16388246	4	40.8	4	70	21	54	22	2	1	73	1.03
16388115--16388247	38	3.6	36	72	20	94	20	2	1	75	0.98
16388040--16388300	95	2.7	96	79	12	236	23	3	1	70	1.14
16388097--16388300	100	2.0	100	81	16	233	22	4	1	71	1.12
16388125--16388248	49	2.5	48	82	13	148	20	2	1	75	1.01
16388106--16388247	17	8.8	15	68	20	58	21	2	1	74	1.02
16391399--16391451	13	4.0	13	85	9	72	81	1	13	3	0.92
16391402--16391451	14	3.7	14	86	7	68	80	2	14	4	0.95
16391400--16391452	27	2.0	27	92	3	90	79	1	13	5	0.99
16391527--16391661	69	2.0	69	89	0	207	37	23	13	25	1.91
16392593--16392705	32	3.5	32	78	10	115	28	14	20	37	1.91
16393283--16393584	106	2.8	106	86	2	417	34	23	17	23	1.96
16393862--16394040	87	2.1	87	93	0	304	32	18	12	35	1.89
16393975--16394161	37	5.3	37	68	16	128	28	18	13	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16393949--16394188	102	2.4	102	91	0	381	32	18	12	36	1.89
16394272--16394375	36	2.9	36	85	1	138	25	18	15	41	1.89
16395546--16395591	24	2.0	23	83	12	58	19	6	4	69	1.28
16395582--16395698	33	3.4	33	73	18	112	30	1	1	65	1.12
16395582--16395630	25	2.0	24	84	7	64	30	0	2	67	1.02
16395659--16395835	11	15.0	11	68	21	69	22	5	1	71	1.13
16395604--16395794	40	4.9	38	76	14	138	26	4	1	67	1.17
16395707--16395757	23	2.2	23	79	6	59	23	1	0	74	0.92
16395746--16395779	14	2.3	15	90	5	52	23	8	0	67	1.18
16397376--16397415	3	13.3	3	100	0	80	67	0	0	32	0.91
16401676--16401766	43	2.1	43	97	0	173	36	6	16	40	1.75
16408032--16408122	43	2.1	43	97	0	173	36	6	16	40	1.75
16414410--16414498	41	2.1	42	95	4	162	35	6	16	40	1.75
16420784--16420874	43	2.1	43	97	0	173	36	6	16	40	1.75
16427152--16427242	43	2.1	43	97	0	173	36	6	16	40	1.75
16433476--16433563	42	2.1	41	95	2	158	37	6	17	38	1.76
16438487--16438576	42	2.1	43	95	2	164	35	6	16	41	1.75
16441356--16441437	37	2.2	37	86	0	110	14	9	42	32	1.79
16452038--16452085	19	2.5	19	96	3	87	52	4	20	22	1.64
16452115--16452154	21	1.9	21	89	0	62	10	25	40	25	1.86
16452137--16452197	20	2.9	21	87	7	79	18	26	34	21	1.96
16456007--16456053	21	2.3	21	78	10	53	38	6	2	53	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16457967--16458020	21	2.6	21	88	5	83	16	22	46	14	1.84
16460525--16460571	21	2.3	21	81	3	51	31	21	8	38	1.83
16463828--16463910	20	4.0	21	81	4	89	37	25	16	20	1.93
16463827--16463904	41	1.9	41	84	5	104	35	26	15	21	1.93
16463922--16463974	21	2.6	20	75	3	52	26	24	26	22	2.00
16467881--16467910	11	2.9	10	90	9	51	26	0	0	73	0.84
16467999--16468028	14	2.2	14	94	5	53	10	6	0	83	0.81
16467993--16468090	31	3.1	31	76	15	94	13	7	2	77	1.06
16467995--16468084	46	2.0	45	82	12	112	13	6	2	77	1.05
16468013--16468066	28	1.9	28	84	0	72	16	5	1	75	1.07
16468004--16468084	23	3.8	22	72	13	64	12	7	2	77	1.06
16469778--16469973	95	2.1	94	86	3	277	32	16	16	34	1.91
16471871--16471935	21	3.4	21	64	24	61	24	18	12	44	1.84
16471868--16472411	36	15.4	36	79	11	581	26	20	13	40	1.89
16471869--16472411	247	2.2	246	92	1	890	26	20	13	40	1.89
16472465--16472583	34	3.5	34	88	1	168	42	17	8	31	1.79
16474744--16474848	5	20.4	5	73	16	72	15	4	4	75	1.14
16474741--16474837	17	5.9	16	72	21	76	16	5	3	75	1.11
16474855--16474923	20	3.4	21	78	13	65	15	5	7	71	1.29
16476978--16477197	110	2.0	108	89	5	336	39	8	3	48	1.52
16479336--16479380	21	2.1	21	84	8	56	33	0	2	64	1.06
16479379--16479459	3	27.0	3	89	0	126	61	0	1	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16479806--16480457	113	5.7	114	82	5	796	29	18	13	37	1.90
16479806--16480454	229	2.8	229	93	0	1077	29	18	14	38	1.90
16481244--16481745	83	6.0	83	95	0	880	36	21	13	28	1.91
16482926--16483003	13	5.4	14	77	13	61	0	17	0	82	0.68
16482924--16483003	16	4.9	16	80	10	83	0	17	0	82	0.67
16482926--16483003	25	3.2	24	82	12	97	0	17	0	82	0.68
16482923--16483006	15	5.9	13	78	15	78	0	17	0	82	0.68
16494356--16494404	14	3.4	14	75	13	55	63	0	0	36	0.95
16495782--16495826	21	2.1	21	84	8	56	33	0	2	64	1.06
16495825--16495906	3	27.0	3	90	2	128	63	0	1	35	1.02
16495973--16496132	86	1.9	86	87	0	239	42	11	11	35	1.76
16497189--16497310	23	5.3	23	92	0	208	27	18	25	27	1.98
16497438--16497506	33	2.1	33	86	0	93	27	13	24	34	1.92
16499047--16499093	20	2.2	22	85	7	62	42	0	2	55	1.12
16506864--16506917	21	2.5	23	79	14	69	33	16	22	27	1.95
16507223--16507287	33	2.0	33	93	0	112	43	3	21	32	1.68
16508022--16508074	18	2.9	18	91	0	79	26	20	24	28	1.99
16521096--16521162	24	2.8	24	80	8	73	16	10	10	62	1.53
16529254--16529298	22	2.0	22	95	0	81	31	31	8	28	1.88
16533582--16533615	16	2.1	16	94	0	59	29	2	5	61	1.34
16533960--16534013	27	2.0	27	100	0	108	25	29	11	33	1.91
16541698--16542144	224	2.0	221	91	3	720	35	12	13	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16541724--16542195	224	2.1	218	83	6	549	35	13	13	37	1.84
16546770--16546944	45	3.9	46	82	6	214	22	23	9	45	1.81
16546774--16546942	90	1.9	89	87	1	248	21	24	8	44	1.80
16547329--16547583	55	4.7	55	89	0	377	34	17	13	34	1.89
16551846--16551931	45	1.9	44	83	6	111	23	31	12	32	1.92
16551899--16552088	45	4.2	45	82	9	226	21	23	9	45	1.81
16551899--16552067	91	1.9	91	88	5	261	20	25	9	44	1.81
16552113--16552717	68	8.9	68	89	1	881	29	23	15	31	1.95
16552113--16552717	203	3.0	204	90	1	917	29	23	15	31	1.95
16552932--16553203	55	4.9	56	85	6	331	33	19	11	34	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91