genome.fa.s7960.2.7.7.80.10.50.1000.19.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  19  of  39  ( 4646 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)
3832965--3833084	60	2.0	60	86	0	168	32	24	21	21	1.98
3833053--3833117	31	2.1	31	85	0	85	33	23	18	24	1.96
3842101--3842420	88	3.6	88	90	2	462	23	22	24	29	1.99
3842101--3842460	88	4.0	89	87	3	456	22	22	25	29	1.99
3842532--3842560	13	2.1	14	93	6	51	13	13	17	55	1.70
3848016--3848060	6	7.3	6	80	5	54	37	17	31	13	1.89
3864126--3864200	8	8.6	8	81	8	60	76	0	14	9	1.03
3864139--3864200	9	6.9	9	85	10	83	79	0	12	8	0.94
3864126--3864200	19	4.3	17	82	12	73	76	0	14	9	1.03
3864143--3864208	19	3.5	18	84	15	89	78	0	13	7	0.94
3865130--3865399	105	2.6	105	93	1	461	37	17	20	25	1.94
3865130--3865433	105	2.9	104	88	6	402	38	16	20	24	1.93
3870353--3870555	112	1.8	112	92	0	343	27	14	25	32	1.95
3870589--3870672	37	2.3	37	89	0	123	41	15	11	30	1.83
3871298--3871350	25	2.0	25	89	7	79	30	0	1	67	1.01
3871357--3871392	11	3.2	11	92	4	54	19	8	5	66	1.38
3871681--3871802	59	2.1	59	100	0	244	18	33	0	48	1.48
3876656--3876708	13	4.2	12	77	17	54	81	3	13	1	0.92
3876642--3876722	25	2.9	29	77	20	84	76	6	14	2	1.08
3877324--3877365	22	1.9	22	100	0	84	38	28	9	23	1.86
3877324--3877378	22	2.5	22	90	0	83	36	29	9	25	1.87
3877793--3877828	18	2.0	18	88	0	54	19	8	27	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3878188--3879244	106	10.0	106	89	2	1504	34	24	18	23	1.96
3879977--3880080	37	2.8	37	91	0	163	40	12	14	32	1.83
3880518--3880571	2	27.0	2	100	0	108	50	0	0	50	1.00
3880665--3880781	30	3.9	28	71	18	85	27	5	0	66	1.18
3880797--3880837	11	3.6	11	87	6	55	24	4	4	65	1.32
3880848--3880888	2	20.5	2	100	0	82	48	0	0	51	1.00
3881236--3881277	19	2.1	21	82	8	52	40	7	0	52	1.29
3881599--3881647	2	24.5	2	100	0	98	48	0	0	51	1.00
3887752--3888407	194	3.4	193	86	7	862	30	16	14	38	1.88
3888500--3888548	15	3.3	15	74	5	55	53	2	0	44	1.12
3888495--3888589	29	3.4	28	78	11	97	50	1	1	47	1.15
3888623--3888663	20	2.0	20	85	0	55	41	0	0	58	0.98
3889298--3889360	22	2.8	22	68	20	58	49	3	0	47	1.17
3889347--3889385	20	2.0	20	89	0	60	41	0	5	53	1.23
3889632--3889681	23	2.2	23	88	0	73	34	16	12	38	1.85
3889612--3889836	84	2.7	84	84	6	323	33	13	11	41	1.80
3889790--3889939	23	6.7	23	87	6	220	36	18	7	38	1.79
3889798--3889939	44	3.2	45	90	6	218	36	18	7	37	1.80
3889790--3889939	67	2.3	67	91	3	241	36	18	7	38	1.79
3889981--3890031	22	2.4	20	79	20	59	33	19	7	39	1.81
3889992--3890039	22	2.1	23	92	3	80	35	20	8	35	1.83
3890739--3890786	2	24.0	2	100	0	96	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)
3899666--3899692	2	13.5	2	100	0	54	51	0	0	48	1.00
3900413--3900458	2	23.0	2	100	0	92	50	0	0	50	1.00
3902661--3902805	39	3.7	39	85	1	175	17	25	24	32	1.97
3904466--3904511	15	3.0	15	87	6	65	23	6	30	39	1.80
3913155--3913239	39	2.2	39	84	0	107	36	5	25	31	1.80
3913167--3913252	39	2.2	39	80	0	109	34	8	27	29	1.86
3914872--3915014	71	2.0	71	98	0	277	41	4	14	39	1.65
3915633--3915672	20	2.0	20	85	0	53	52	2	2	42	1.28
3915662--3915714	21	2.5	21	93	0	88	45	9	5	39	1.60
3915740--3915805	32	2.1	32	85	0	87	37	4	13	43	1.65
3915757--3915841	32	2.7	32	78	8	95	37	5	14	42	1.69
3920571--3920610	21	1.9	21	94	0	71	0	7	57	35	1.27
3920574--3920620	21	2.2	21	84	0	58	2	8	55	34	1.42
3920578--3920956	60	6.2	60	90	3	508	12	9	50	27	1.71
3920728--3920836	36	3.4	35	63	28	87	13	8	50	27	1.70
3922992--3923665	182	3.7	182	90	0	1028	41	14	16	27	1.88
3926068--3926132	21	3.1	21	93	0	103	40	9	35	15	1.79
3926166--3926265	33	3.0	33	92	0	164	31	1	45	23	1.60
3926196--3926249	18	3.2	18	66	15	51	35	0	40	24	1.55
3926421--3926459	18	2.2	18	86	4	53	71	2	7	17	1.21
3928023--3928067	19	2.4	19	96	0	81	33	2	8	55	1.43
3928440--3928478	19	2.1	19	100	0	78	46	33	10	10	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928459--3929985	200	7.7	200	86	2	1872	37	14	16	32	1.89
3933160--3933216	26	2.2	26	93	0	96	24	12	22	40	1.88
3934541--3934580	21	1.9	21	89	0	62	10	25	40	25	1.86
3934563--3934623	20	2.9	21	85	7	70	16	26	32	24	1.96
3940125--3940149	12	2.1	12	100	0	50	8	24	8	60	1.52
3942114--3942150	18	2.1	18	89	0	56	32	5	10	51	1.60
3942106--3942158	24	2.2	24	86	0	70	35	3	13	47	1.61
3942385--3943135	199	3.8	197	85	6	959	39	13	15	31	1.86
3943939--3944473	204	2.7	198	82	5	637	39	13	16	31	1.86
3946176--3946227	27	1.9	27	92	0	86	32	25	3	38	1.74
3947921--3947984	2	32.0	2	100	0	128	50	0	0	50	1.00
3951186--3951216	13	2.4	13	100	0	62	32	0	19	48	1.49
3952050--3952080	16	1.9	16	93	0	53	74	3	0	22	0.96
3953770--3953804	18	1.9	18	88	11	54	11	5	2	80	1.00
3953765--3953820	29	2.0	28	82	3	67	14	5	3	76	1.09
3956408--3956672	96	2.7	96	87	5	374	32	17	17	32	1.93
3957913--3958040	36	3.6	34	82	11	139	26	21	12	39	1.89
3957967--3958031	21	3.4	20	68	24	59	24	21	10	43	1.84
3957937--3958380	36	12.6	36	76	10	337	26	20	12	40	1.88
3958117--3958178	20	3.3	19	68	25	51	24	24	12	38	1.90
3957965--3958226	109	2.5	102	77	10	253	25	20	12	40	1.88
3957950--3958380	174	2.5	174	88	1	666	25	20	12	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3958112--3958370	138	1.9	137	89	2	394	26	20	13	39	1.89
3958239--3958380	37	3.9	37	82	2	162	23	21	13	42	1.88
3958139--3958328	101	1.9	102	86	2	274	25	20	13	40	1.89
3958241--3958380	73	1.9	72	86	1	199	23	21	12	42	1.87
3958437--3958519	31	2.6	31	76	14	82	43	16	8	31	1.78
3958437--3958525	33	2.8	31	78	16	94	41	17	8	31	1.81
3959451--3959502	27	2.0	24	85	10	68	51	1	0	46	1.12
3959465--3959555	40	2.2	42	75	11	98	54	0	1	43	1.07
3959475--3959534	20	3.1	19	78	4	57	53	0	1	45	1.10
3959675--3959720	20	2.3	20	84	0	56	56	2	2	39	1.24
3959686--3959734	18	2.4	21	70	25	50	59	0	0	40	0.98
3959684--3959728	20	2.3	20	88	7	67	62	0	0	37	0.96
3959480--3959861	186	2.1	186	92	0	647	43	2	8	45	1.48
3961357--3961503	20	7.3	20	85	4	197	28	27	21	23	1.99
3961357--3961503	61	2.4	60	88	3	206	28	27	21	23	1.99
3962322--3962375	24	2.2	24	90	0	81	20	16	20	42	1.89
3964535--3964569	18	1.9	18	94	0	61	54	25	2	17	1.57
3964747--3965001	20	13.7	20	70	19	142	36	21	18	23	1.95
3964752--3964905	54	2.9	54	89	1	220	37	21	18	22	1.94
3964744--3965013	74	3.7	73	79	7	262	37	21	17	22	1.94
3964880--3964981	53	1.9	54	89	2	161	35	24	17	22	1.95
3964823--3965013	73	2.6	74	84	2	251	38	22	16	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3965136--3965215	30	2.4	34	78	20	105	55	15	2	27	1.53
3965151--3965216	30	2.2	30	97	0	123	54	13	1	30	1.48
3966603--3966702	21	4.8	21	74	4	85	25	19	35	21	1.96
3966594--3966702	42	2.6	42	79	2	121	25	18	36	19	1.94
3967181--3967224	20	2.2	20	100	0	88	52	22	11	13	1.72
3967191--3967277	20	4.3	20	86	2	86	39	24	16	20	1.92
3967251--3967331	33	2.4	33	91	2	126	40	22	19	17	1.91
3967334--3967413	20	4.0	20	90	3	117	22	21	23	32	1.98
3967337--3967429	20	4.7	20	87	0	105	18	21	24	35	1.95
3969470--3969525	20	2.8	20	91	0	85	50	21	16	12	1.78

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