genome.fa.s8488.2.7.7.80.10.50.1000.45.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  45  of  54  ( 6450 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)
10709167--10709239	21	3.5	21	88	1	103	21	21	16	39	1.92
10709229--10709328	41	2.5	38	80	15	105	36	16	24	24	1.94
10712303--10712351	25	2.0	24	84	15	64	57	10	4	28	1.50
10712617--10712708	27	3.2	28	76	14	82	59	9	14	16	1.60
10714139--10714188	3	17.0	3	78	12	50	62	0	0	38	0.96
10714372--10714731	134	2.7	134	86	4	478	25	18	31	25	1.98
10714940--10715165	91	2.5	89	81	9	271	45	14	11	28	1.80
10715112--10715208	29	3.4	27	81	8	106	46	15	10	27	1.78
10715362--10715420	31	1.9	31	86	3	84	38	16	13	30	1.88
10715458--10715552	37	2.6	37	86	1	120	42	11	13	32	1.81
10716137--10716198	4	15.5	4	77	12	56	29	0	22	48	1.51
10716137--10716207	16	4.4	16	82	7	90	28	1	22	47	1.59
10717507--10717541	12	2.8	12	91	4	52	0	11	2	85	0.69
10719262--10719308	24	2.0	23	91	4	76	61	0	0	38	0.96
10719345--10719380	18	2.1	18	89	5	56	75	0	8	16	1.04
10725321--10725358	18	2.1	18	100	0	76	18	34	10	36	1.85
10726948--10726972	10	2.5	10	100	0	50	72	12	8	8	1.29
10735399--10735457	23	2.6	23	72	0	64	33	22	23	20	1.97
10744697--10744742	22	2.1	22	88	8	67	32	4	8	54	1.51
10745287--10745327	19	2.2	19	90	0	64	34	0	24	41	1.55
10750024--10750049	8	3.2	8	100	0	52	73	0	0	26	0.84
10752869--10752935	24	2.8	24	81	6	82	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10754112--10754142	2	15.5	2	100	0	62	48	0	0	51	1.00
10754413--10754452	18	2.1	18	86	9	53	47	0	2	50	1.14
10754929--10754955	13	2.1	13	100	0	54	44	18	22	14	1.86
10755383--10755434	15	3.3	15	84	10	61	26	0	3	69	1.06
10759738--10759953	72	3.0	72	91	2	328	28	20	14	36	1.93
10763972--10764117	54	2.7	54	91	2	222	39	15	19	26	1.90
10765179--10765366	77	2.5	76	96	0	349	22	19	21	35	1.96
10765308--10765411	45	2.3	45	88	3	147	25	21	21	32	1.98
10765231--10765597	122	3.0	122	91	2	567	24	21	20	33	1.97
10765430--10765533	45	2.3	45	88	0	145	27	22	18	31	1.97
10765757--10765837	3	26.0	3	85	5	99	39	0	0	60	0.97
10769917--10769945	2	14.5	2	100	0	58	48	0	0	51	1.00
10770272--10770314	22	2.0	22	81	9	52	46	9	4	39	1.57
10774120--10774161	21	2.0	21	95	0	75	30	14	7	47	1.71
10774156--10774258	33	3.2	33	91	2	165	32	7	15	44	1.75
10774300--10774355	15	3.6	15	83	9	76	30	12	12	44	1.79
10774302--10774352	17	3.1	17	86	5	70	33	9	11	45	1.74
10774446--10774477	16	2.0	17	88	11	50	43	21	21	12	1.86
10774517--10774552	18	2.0	18	100	0	72	50	11	16	22	1.77
10774586--10774637	27	1.9	27	84	0	68	46	1	15	36	1.57
10775899--10776167	108	2.5	109	91	1	441	41	15	19	23	1.90
10777956--10779036	137	7.8	137	83	1	1133	24	16	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10777722--10779036	274	4.8	275	82	3	1277	23	16	26	33	1.96
10779552--10779628	20	3.8	20	100	0	154	36	15	14	33	1.88
10779317--10779587	94	2.9	93	84	6	350	38	11	16	32	1.85
10779653--10779827	67	2.6	65	80	8	192	40	14	16	29	1.87
10780036--10780126	35	2.5	36	80	3	112	39	14	15	30	1.87
10782659--10782726	23	2.9	24	80	8	86	30	25	23	20	1.98
10786028--10786087	20	3.0	20	97	2	111	33	21	20	25	1.97
10787975--10788011	19	1.9	19	94	0	65	40	5	16	37	1.71
10789364--10789441	41	1.9	41	81	0	93	37	15	15	32	1.89
10792771--10792805	4	8.8	4	93	0	61	74	0	2	22	0.95
10792876--10793142	109	2.5	109	88	3	405	40	15	19	23	1.90
10794796--10794832	19	1.9	19	88	0	56	32	0	8	59	1.27
10794915--10794988	23	3.2	23	83	7	96	43	9	17	29	1.81
10794917--10794989	24	3.1	24	84	5	96	42	9	16	31	1.80
10795117--10795197	40	2.0	40	97	0	153	30	2	4	61	1.30
10798029--10798056	3	9.3	3	100	0	56	0	0	32	67	0.91
10798590--10798797	104	2.0	104	99	0	407	30	16	14	37	1.89
10802652--10802730	24	3.2	24	71	18	74	55	1	3	39	1.26
10803051--10803099	22	2.2	23	82	10	57	10	16	22	51	1.74
10810429--10810457	12	2.3	13	94	5	51	48	6	0	44	1.29
10810917--10810990	32	2.3	32	100	0	148	50	2	18	28	1.61
10811797--10811836	15	2.7	15	84	0	53	30	7	25	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10811972--10812017	24	1.9	24	90	0	74	23	15	26	34	1.94
10817257--10817297	2	20.5	2	100	0	82	48	0	0	51	1.00
10817758--10817814	20	2.8	20	89	0	87	15	38	22	22	1.92
10821337--10821386	19	2.6	19	93	0	82	24	22	20	34	1.97
10825109--10825165	20	2.8	20	89	7	89	21	36	21	21	1.95
10827394--10827432	17	2.4	17	95	4	71	43	0	5	51	1.24
10830490--10830527	10	3.8	10	86	10	51	2	10	5	81	0.94
10831278--10831344	35	1.9	35	87	0	98	38	11	26	22	1.89
10833075--10833140	21	3.0	21	72	23	73	28	28	19	22	1.98
10833069--10833154	44	2.0	44	92	0	145	30	26	18	24	1.98
10833068--10833133	21	3.0	21	75	20	73	30	27	19	22	1.98
10838823--10838960	21	6.4	20	81	11	91	34	27	17	20	1.95
10838839--10838896	23	2.5	23	91	2	89	34	25	18	20	1.96
10839776--10839827	20	2.6	20	93	0	86	25	23	19	32	1.97
10841231--10841365	36	3.8	36	82	2	137	30	13	7	48	1.69
10841222--10841362	71	2.0	71	84	0	183	32	12	7	46	1.71
10841764--10841810	23	2.1	22	84	4	58	27	6	6	59	1.46
10870893--10870928	16	2.2	16	90	9	56	66	0	11	22	1.22
10874100--10874139	20	2.0	21	90	5	64	22	12	20	45	1.84
10875872--10876207	181	1.9	181	86	4	480	40	6	6	47	1.54
10877314--10877350	2	18.5	2	100	0	74	48	0	0	51	1.00
10877396--10877439	19	2.5	18	89	10	65	18	2	0	79	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10881073--10881130	29	2.0	29	93	0	98	27	17	20	34	1.95
10881810--10882000	73	2.6	73	93	1	321	30	15	11	42	1.82
10881815--10882025	36	5.8	36	72	4	172	30	15	11	42	1.82
10882022--10882722	124	5.7	123	88	2	1012	40	15	17	26	1.90
10883436--10883460	13	1.9	13	100	0	50	16	12	0	72	1.13
10883979--10884039	23	2.7	22	76	14	54	21	8	1	68	1.24
10884485--10884821	183	1.9	180	86	6	484	40	6	6	47	1.55
10888980--10889235	134	1.9	132	90	2	406	39	14	15	29	1.88
10889804--10889843	2	20.0	2	100	0	80	50	0	0	50	1.00
10897780--10897852	15	4.7	15	73	17	60	50	0	1	47	1.09
10897806--10897848	21	2.0	22	86	4	61	48	0	0	51	1.00
10898176--10898217	21	2.0	21	85	4	57	57	2	7	33	1.39
10902900--10903031	30	4.5	30	83	2	160	36	18	21	23	1.95
10908674--10908700	2	13.5	2	100	0	54	48	0	0	51	1.00
10908706--10908745	21	1.9	20	90	10	62	50	7	5	37	1.53
10908706--10908806	22	5.0	21	68	23	65	44	9	5	39	1.62
10908690--10908781	36	2.5	35	83	13	107	46	8	4	40	1.54
10908750--10908867	24	5.5	22	68	21	81	42	9	5	43	1.59
10908772--10908844	38	1.9	38	88	5	112	41	10	4	43	1.59
10908710--10908928	62	3.6	60	83	7	241	43	9	3	43	1.53
10908829--10908903	36	2.0	36	84	5	96	45	9	2	42	1.50
10908867--10908944	26	3.3	22	78	18	77	43	5	0	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10908883--10908944	26	2.5	26	87	7	85	43	3	0	53	1.17
10911355--10911409	2	27.5	2	100	0	110	50	0	0	49	1.00
10912050--10912757	134	5.3	134	83	5	797	30	16	19	33	1.94
10912160--10912757	270	2.2	267	85	3	770	30	16	20	32	1.94
10913018--10914543	236	6.5	236	87	2	2070	36	17	15	31	1.91
10914280--10914380	42	2.4	41	77	6	114	34	22	19	22	1.96
10913018--10914543	470	3.2	470	88	2	2247	36	17	15	31	1.91
10917538--10917610	30	2.4	30	84	9	94	39	5	21	32	1.77
10917711--10917764	18	3.0	18	97	0	99	18	22	31	27	1.97
10921680--10921752	30	2.4	30	83	4	92	38	6	24	30	1.81

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