genome.fa.s8124.2.7.7.80.10.50.1000.13.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  13  of  19  ( 2165 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)
2209985--2210025	21	2.0	21	90	0	64	29	21	26	21	1.99
2216100--2216149	21	2.4	21	100	0	100	30	20	26	24	1.98
2216260--2216398	70	2.0	70	91	0	224	33	20	2	42	1.67
2218256--2218309	19	2.8	19	86	8	65	50	1	12	35	1.52
2219240--2219282	13	3.3	13	90	0	68	32	20	13	32	1.92
2223917--2223962	20	2.3	20	88	0	65	30	23	17	28	1.97
2224549--2224644	48	2.0	48	95	0	174	37	8	16	37	1.79
2232395--2232557	57	2.9	57	85	1	229	42	19	20	17	1.89
2244448--2244532	38	2.2	38	97	0	161	45	16	3	34	1.64
2245662--2245735	34	2.2	34	95	0	130	55	6	20	17	1.64
2249826--2249890	31	2.1	31	100	0	130	20	46	0	33	1.51
2251673--2251720	22	2.2	22	96	0	87	37	12	4	45	1.61
2253474--2253739	134	2.0	135	91	3	430	36	6	19	37	1.77
2256360--2256433	27	2.7	26	89	8	80	31	0	8	60	1.25
2256312--2256433	29	4.3	28	83	14	137	28	0	10	59	1.36
2259950--2260007	10	5.8	10	76	8	55	67	8	0	24	1.18
2259943--2260010	15	4.6	15	75	8	68	64	8	0	26	1.22
2285115--2285758	331	1.9	332	91	0	1047	30	18	14	36	1.91
2287230--2287275	24	2.0	22	83	8	56	65	2	21	10	1.35
2287538--2287575	19	2.0	19	94	0	67	68	0	7	23	1.16
2303002--2303290	158	1.8	157	97	2	481	28	25	15	30	1.96
2308603--2308682	38	2.1	39	84	9	103	51	3	0	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2314374--2314440	2	33.5	2	100	0	134	50	0	0	49	1.00
2321213--2321582	185	2.0	183	90	2	589	42	2	8	46	1.49
2322087--2322150	3	21.3	3	100	0	128	32	0	0	67	0.91
2322183--2322250	22	3.1	22	100	0	136	45	14	35	4	1.65
2323855--2323905	23	2.2	24	83	16	63	31	0	1	66	1.03
2323879--2323931	17	3.2	17	83	5	63	32	0	3	64	1.12
2323855--2323914	23	2.6	23	79	12	61	33	0	1	65	1.03
2323878--2323932	16	3.2	17	79	7	58	30	0	3	65	1.10
2326298--2326370	26	2.7	28	83	10	107	47	1	1	49	1.18
2326298--2326370	27	2.7	27	85	8	96	47	1	1	49	1.18
2326399--2326423	2	12.5	2	100	0	50	52	0	0	48	1.00
2326429--2326461	16	2.1	16	88	11	50	15	15	0	69	1.19
2327184--2327225	14	3.0	14	85	0	66	54	16	16	11	1.70
2329320--2329348	14	2.1	14	100	0	58	65	6	6	20	1.40
2332311--2332348	18	2.1	18	95	0	67	36	10	10	42	1.74
2333683--2333729	25	1.9	24	83	12	60	68	0	8	23	1.17
2352187--2352274	39	2.3	39	78	11	92	37	19	18	25	1.94
2354518--2354574	23	2.5	22	83	8	69	50	17	7	24	1.70
2356873--2356897	12	2.1	12	100	0	50	36	0	24	40	1.55
2360671--2360713	18	2.3	19	80	8	52	65	4	11	18	1.42
2363672--2363979	137	2.3	136	89	2	467	27	22	19	31	1.97
2364299--2364326	2	14.0	2	100	0	56	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)
2364322--2364538	19	11.2	19	75	17	189	51	0	6	41	1.32
2364318--2364533	38	5.5	38	88	7	283	50	0	6	42	1.33
2364512--2364554	21	2.0	21	82	8	52	55	0	11	32	1.36
2364608--2364662	28	2.0	28	86	10	78	38	0	0	61	0.96
2364685--2364721	13	2.8	13	91	0	65	37	29	8	24	1.84
2367437--2367529	21	4.5	21	78	4	100	39	18	24	17	1.91
2367437--2367529	41	2.3	41	100	0	186	39	18	24	17	1.91
2367760--2367802	22	2.0	22	100	0	86	18	41	13	25	1.88
2370071--2370124	24	2.2	24	90	0	81	38	20	16	24	1.92
2371186--2371243	20	2.9	20	94	0	98	37	22	22	17	1.93
2371249--2371319	33	2.2	33	81	0	79	19	18	21	40	1.91
2371271--2371320	14	3.2	14	75	24	55	12	20	20	48	1.80
2371262--2371339	33	2.4	33	88	0	111	12	21	21	43	1.86
2373333--2373399	19	3.5	19	83	4	89	37	23	23	14	1.93
2373388--2373445	14	3.9	14	75	16	62	50	24	15	10	1.75
2373372--2373450	32	2.4	32	91	2	131	48	22	17	11	1.79
2373479--2373536	14	3.9	14	79	16	71	10	17	24	48	1.78
2373462--2373552	32	2.8	33	94	3	166	12	18	21	47	1.81
2373546--2373589	20	2.2	20	87	0	61	15	20	22	40	1.90
2374064--2374108	18	2.5	18	88	0	72	13	15	44	26	1.83
2375428--2375465	20	1.9	20	88	0	58	50	21	15	13	1.78
2375729--2375772	22	2.0	22	95	0	79	18	15	45	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2375997--2376097	20	4.9	21	71	12	59	18	19	18	42	1.89
2375960--2376053	20	4.7	20	80	2	89	23	18	24	34	1.96
2375981--2376115	41	3.3	41	82	4	139	19	21	20	38	1.94
2376042--2376134	20	4.6	20	78	4	96	17	24	18	39	1.91
2376042--2376134	41	2.3	41	100	0	186	17	24	18	39	1.91
2381373--2381454	29	2.8	29	94	1	137	32	14	9	42	1.79
2386145--2386226	29	2.8	29	94	1	137	32	14	9	42	1.79
2388593--2388730	21	6.7	21	69	6	59	34	25	18	21	1.96
2388698--2389066	20	18.5	20	85	4	458	34	26	18	20	1.96
2389749--2389795	24	2.0	24	87	8	69	25	14	21	38	1.92
2389970--2389994	12	2.1	12	100	0	50	72	0	28	0	0.86
2392277--2392583	19	17.4	19	80	16	376	46	18	20	14	1.83
2392305--2392583	52	5.2	52	93	4	388	46	17	21	14	1.83
2392344--2392583	71	3.4	71	86	11	373	47	17	20	14	1.83
2392277--2392621	142	2.5	138	90	6	518	46	18	20	14	1.84
2392277--2392605	52	6.3	55	88	9	332	46	18	20	14	1.84
2392578--2392725	72	2.1	71	80	3	163	21	22	16	39	1.92
2392612--2392732	33	3.3	35	83	14	147	14	23	17	44	1.86
2392612--2392732	19	6.6	19	87	10	189	14	23	17	44	1.86
2392839--2392875	14	2.6	14	91	0	65	45	21	0	32	1.52
2394800--2394865	19	3.4	20	87	6	100	45	27	15	12	1.81
2394856--2394911	14	3.6	14	76	21	58	46	23	19	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2394837--2394928	33	2.8	33	88	4	134	47	22	17	11	1.80
2394816--2394933	19	6.8	18	74	19	83	47	23	17	11	1.80
2394929--2395057	19	7.3	19	75	17	125	8	17	28	45	1.77
2394929--2395020	33	2.8	33	93	3	150	7	18	28	45	1.76
2395101--2395572	93	5.1	93	99	0	921	46	18	12	22	1.83
2395101--2395572	185	2.6	185	98	1	919	46	18	12	22	1.83
2397279--2397368	14	5.7	14	74	23	81	42	23	25	8	1.83
2397271--2397385	33	3.5	33	93	0	203	45	20	23	10	1.82
2397278--2397390	19	6.8	18	71	23	79	43	22	23	10	1.84
2397402--2397456	14	3.6	14	73	21	56	9	25	23	41	1.83
2397386--2397456	33	2.2	33	94	0	124	8	22	25	43	1.81
2397397--2397478	33	2.5	33	89	2	119	9	25	21	42	1.84
2397409--2397497	20	4.8	20	72	19	75	12	24	19	43	1.85
2397577--2397647	33	2.2	33	92	0	115	47	18	22	11	1.80
2397828--2397882	22	2.5	22	81	0	74	20	16	40	23	1.91
2398028--2398220	20	9.6	20	82	5	219	19	19	25	35	1.95
2398028--2398220	60	3.2	60	83	0	251	19	19	25	35	1.95
2398276--2398327	20	2.6	20	96	0	95	21	13	26	38	1.90
2400139--2400225	25	3.3	26	71	19	74	43	3	1	51	1.26
2400150--2400225	24	3.0	24	74	14	73	43	3	1	51	1.28
2400152--2400228	25	3.0	26	80	12	90	42	3	1	51	1.28
2400139--2400249	27	4.3	27	79	9	90	41	2	1	54	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2400396--2400463	31	2.2	31	86	5	93	51	10	8	29	1.66
2402272--2402303	4	8.2	4	93	6	57	25	0	0	75	0.81
2402723--2402778	6	8.8	6	75	16	51	30	1	1	66	1.12
2402723--2402778	13	4.4	12	77	18	51	30	1	1	66	1.12
2403657--2403713	23	2.5	23	91	0	96	26	28	28	17	1.98
2410540--2410591	23	2.3	23	86	0	68	30	26	23	19	1.98
2411266--2411296	16	1.9	16	100	0	62	19	25	25	29	1.99
2416248--2416281	16	2.1	16	94	0	59	55	35	2	5	1.39
2423472--2423519	16	3.1	15	82	11	60	22	20	16	39	1.92
2423792--2423886	23	4.1	23	95	2	165	44	1	4	50	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19