genome.fa.s9462.2.7.7.80.10.50.1000.19.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  19  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)
3827667--3827826	37	4.4	35	75	16	139	33	20	10	36	1.86
3827667--3827826	75	2.2	74	88	4	236	33	20	10	36	1.86
3827706--3828060	72	4.9	72	74	12	239	30	20	9	40	1.84
3828643--3828684	17	2.5	17	100	0	84	14	28	0	57	1.38
3829319--3829370	17	3.0	17	85	2	59	30	1	0	67	1.02
3829475--3829524	25	2.0	25	84	11	66	36	0	10	54	1.34
3833012--3833049	15	2.5	15	91	4	58	86	0	10	2	0.66
3853991--3854019	4	7.5	4	92	7	51	79	0	0	20	0.74
3854100--3854284	31	6.1	31	70	11	134	58	4	1	35	1.29
3854081--3854165	31	3.0	26	75	18	80	60	4	1	34	1.25
3854112--3854333	119	1.9	120	84	6	308	56	4	1	36	1.31
3855739--3855850	37	3.0	37	92	0	170	41	12	12	33	1.81
3856472--3856664	36	5.4	36	71	22	106	22	6	1	69	1.16
3856466--3856578	36	3.1	36	82	11	115	25	4	0	69	1.13
3856639--3856703	27	2.4	27	77	10	78	20	12	0	67	1.22
3857725--3857755	15	2.1	15	93	0	53	19	3	0	77	0.90
3859693--3859725	17	1.9	17	88	11	50	78	9	12	0	0.95
3860746--3860837	32	2.9	32	86	0	130	28	14	25	32	1.94
3861453--3861532	36	2.2	36	93	2	133	30	20	12	37	1.89
3861545--3861705	37	4.4	37	83	2	191	26	19	13	40	1.89
3861547--3861705	73	2.2	73	86	1	221	26	20	13	40	1.89
3861758--3861876	34	3.4	35	94	3	204	41	17	9	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3862467--3862578	37	3.0	37	96	0	197	41	14	14	30	1.85
3863121--3863192	2	36.5	2	82	8	58	37	1	0	61	1.05
3863081--3863129	25	2.0	25	88	4	73	22	6	4	67	1.30
3863186--3863260	24	3.1	23	73	19	64	20	5	1	73	1.10
3866091--3866130	20	2.0	20	85	0	53	25	15	20	40	1.90
3866631--3866688	30	1.9	30	85	0	80	50	3	10	36	1.54
3866696--3866743	25	1.9	25	82	0	60	43	4	8	43	1.53
3867303--3867351	21	2.3	21	86	6	73	24	24	16	34	1.95
3867341--3867392	21	2.5	21	87	3	70	38	17	23	21	1.93
3867320--3867535	41	5.3	41	68	8	116	32	19	18	28	1.96
3867412--3867468	20	2.8	21	72	5	53	22	19	14	43	1.86
3867464--3867560	20	4.8	21	83	6	128	39	19	19	21	1.93
3867464--3867555	41	2.3	40	86	5	123	40	19	20	19	1.92
3867764--3867816	27	1.9	27	84	3	70	39	32	7	20	1.81
3868138--3868268	19	7.4	19	80	16	165	10	21	22	45	1.82
3868193--3868248	14	3.6	14	76	21	58	8	23	23	44	1.81
3868138--3868305	33	4.9	33	89	4	201	11	22	20	44	1.84
3868146--3868268	52	2.4	52	81	17	157	10	21	21	45	1.82
3868284--3868330	20	2.3	20	76	20	53	12	23	14	48	1.78
3870653--3870695	20	2.2	20	95	0	77	53	18	18	9	1.70
3871168--3871305	41	3.4	41	78	2	161	23	15	25	35	1.94
3871188--3871301	20	5.7	20	78	6	104	23	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3871235--3871323	41	2.2	41	83	4	108	20	20	24	34	1.96
3871296--3871342	20	2.3	20	85	3	58	21	21	17	40	1.91
3871332--3871384	21	2.5	22	81	6	74	33	18	26	20	1.96
3874330--3874381	25	2.1	25	82	7	61	57	3	0	38	1.17
3875968--3876001	3	12.0	3	87	12	54	64	0	0	35	0.94
3875968--3876000	8	4.0	8	92	7	57	63	0	0	36	0.95
3876130--3876342	45	4.7	46	90	2	333	35	17	21	25	1.95
3876130--3876342	91	2.4	90	91	2	338	35	17	21	25	1.95
3877002--3877052	19	2.5	20	84	12	68	35	15	11	37	1.84
3877409--3877539	54	2.4	54	77	0	136	22	22	12	42	1.86
3880685--3880735	20	2.5	20	100	0	102	29	27	17	25	1.98
3887711--3887758	17	2.8	17	93	3	78	0	25	0	75	0.81
3887711--3887759	9	5.8	8	81	13	62	0	24	0	75	0.80
3887728--3887897	16	9.9	18	90	6	200	0	5	0	93	0.37
3887754--3887888	1	135.0	1	97	0	243	0	1	0	97	0.17
3892835--3892909	36	2.2	33	80	7	87	60	2	0	37	1.11
3901575--3901614	3	13.3	3	100	0	80	67	0	32	0	0.91
3903006--3903047	2	21.0	2	100	0	84	50	0	0	50	1.00
3906840--3906946	20	5.5	19	64	21	51	32	15	20	30	1.94
3907120--3907176	20	2.9	19	65	14	53	28	17	19	35	1.94
3906749--3907191	39	11.4	39	90	0	645	34	16	17	32	1.92
3911317--3911355	9	4.2	9	83	6	51	82	0	2	15	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911305--3911360	23	2.3	23	81	6	58	78	0	1	19	0.84
3911404--3911454	22	2.4	20	84	12	66	56	9	11	21	1.63
3911442--3911480	16	2.2	18	86	13	55	51	15	10	23	1.73
3915589--3915631	21	2.1	20	83	12	52	48	23	0	27	1.51
3915862--3915958	40	2.3	43	81	6	103	34	24	15	25	1.95
3915942--3916075	49	2.7	49	94	0	232	35	20	17	26	1.95
3916157--3916189	13	2.5	13	81	18	50	36	30	9	24	1.86
3916879--3916933	20	2.8	19	86	5	74	20	7	32	40	1.80
3929370--3929405	13	2.9	12	95	4	63	0	11	0	88	0.50
3929966--3930012	3	15.3	3	78	12	51	63	0	2	34	1.06
3941056--3941103	18	2.7	18	96	0	87	35	22	22	18	1.96
3943497--3943633	40	3.4	39	80	7	116	30	24	12	32	1.92
3943526--3943633	20	5.3	20	82	5	119	32	24	12	30	1.93
3943524--3943633	41	2.7	40	84	5	141	31	23	13	30	1.93
3943617--3943665	20	2.5	20	86	6	64	24	28	12	34	1.91
3943655--3943746	40	2.3	40	80	0	121	32	18	11	36	1.87
3943656--3943763	20	5.5	20	70	17	66	31	19	11	37	1.87
3947015--3947050	18	2.0	18	94	0	63	58	25	0	16	1.38
3947328--3947399	20	3.6	20	94	0	117	18	18	19	44	1.87
3947416--3947458	20	2.2	20	95	0	77	18	6	25	48	1.73
3948922--3949019	21	4.7	21	80	8	110	22	20	33	23	1.97
3948922--3949019	42	2.3	42	86	6	128	22	20	33	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3949422--3949471	21	2.4	21	79	0	55	34	34	14	18	1.90
3949586--3949681	42	2.3	42	87	0	129	17	15	37	29	1.91
3949988--3950064	20	3.8	21	86	6	88	23	16	19	40	1.91
3953497--3953537	16	2.7	15	92	3	64	46	0	0	53	1.00
3953481--3953524	3	14.7	3	86	9	54	38	0	0	61	0.96
3954634--3954658	13	1.9	13	100	0	50	48	0	12	40	1.40
3954881--3954910	3	10.0	3	92	0	51	33	3	0	63	1.11
3955104--3955145	20	2.2	19	86	4	57	33	0	2	64	1.07
3955001--3955236	120	2.0	117	82	4	285	39	6	6	46	1.57
3959223--3959253	15	2.1	15	93	0	53	25	19	9	45	1.81
3965942--3966127	101	1.8	101	100	0	372	37	11	23	27	1.90
3966409--3966479	1	71.0	1	74	0	61	87	0	12	0	0.55
3966398--3966478	8	10.2	8	79	10	87	85	0	13	1	0.67
3966401--3966480	25	3.3	24	84	8	101	85	0	13	1	0.67
3966401--3966479	12	6.5	13	81	13	89	86	0	12	1	0.64
3966417--3966480	22	2.9	22	88	9	94	85	0	14	0	0.59
3967211--3967547	114	3.0	114	93	0	575	33	15	20	30	1.93
3968557--3968603	24	2.0	23	84	12	60	55	6	23	14	1.63
3968510--3968837	113	3.0	113	80	5	415	37	14	18	28	1.91
3969175--3969226	3	17.7	3	88	11	81	32	0	0	67	0.91
3970762--3970803	20	2.2	19	86	4	57	33	0	2	64	1.07
3970873--3970927	10	5.3	10	85	8	56	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3970896--3970929	2	17.0	2	93	0	59	47	0	0	52	1.00
3977034--3977081	25	2.0	23	84	8	60	10	12	39	37	1.77
3977971--3978398	83	5.2	83	90	0	694	30	21	19	28	1.97
3978298--3979331	233	4.4	233	85	2	1358	33	16	16	33	1.91
3986580--3986637	23	2.5	23	88	5	91	36	13	17	32	1.89
3986740--3986813	28	2.6	28	97	0	139	18	21	28	31	1.97
3986768--3986859	46	2.0	46	95	0	166	20	19	30	29	1.97
3986796--3986831	18	2.0	18	88	0	54	25	16	33	25	1.96
3986737--3986903	74	2.3	74	93	0	298	20	20	29	29	1.98
3986814--3986887	28	2.6	28	93	0	121	21	18	29	29	1.97

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