genome.fa.s8016.2.7.7.80.10.50.1000.6.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  6  of  25  ( 2971 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)
1264487--1264950	112	4.1	112	93	0	748	44	14	15	26	1.84
1264821--1265819	182	5.5	182	93	0	1646	41	12	17	28	1.85
1264821--1265816	361	2.7	362	92	0	1625	41	12	16	28	1.85
1266008--1266055	23	2.1	23	92	0	78	37	18	8	35	1.81
1270030--1270074	19	2.3	18	85	11	54	48	0	4	46	1.22
1270041--1270080	18	2.2	19	90	4	64	45	0	2	52	1.14
1275108--1275387	30	9.8	30	73	13	126	36	7	0	55	1.34
1275094--1275187	29	3.1	29	75	13	84	39	8	1	51	1.40
1275304--1275354	24	2.1	25	88	3	77	37	0	0	62	0.95
1275314--1275406	30	3.1	30	87	3	134	37	2	0	60	1.09
1275374--1275422	24	2.2	24	85	10	68	42	4	0	53	1.20
1277641--1277673	17	1.9	17	100	0	66	60	6	0	33	1.21
1279347--1279422	31	2.5	31	88	0	116	48	19	14	17	1.81
1279347--1279436	31	2.9	31	81	6	94	44	20	16	18	1.87
1284232--1284276	24	1.9	24	86	13	67	53	4	2	40	1.33
1284544--1284587	23	1.9	23	95	0	79	29	18	18	34	1.94
1287160--1287270	55	2.0	55	96	0	204	18	26	18	36	1.94
1290169--1290208	2	20.0	2	100	0	80	50	0	0	50	1.00
1291096--1291162	29	2.3	29	89	2	109	55	16	10	17	1.69
1292325--1292373	21	2.3	22	85	3	73	36	8	2	53	1.43
1292370--1292422	27	2.0	27	81	7	63	39	5	13	41	1.68
1297199--1297227	4	7.2	4	100	0	58	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297632--1297735	50	2.1	50	98	0	199	22	21	24	32	1.98
1300940--1300997	21	2.8	21	100	0	116	39	10	6	43	1.66
1302381--1302590	65	3.2	64	78	7	219	30	24	18	26	1.97
1308400--1308480	24	3.5	24	70	20	75	22	24	22	30	1.99
1312407--1312454	2	23.5	2	91	4	78	47	0	4	47	1.21
1312815--1312905	31	2.9	31	88	0	128	26	19	19	34	1.96
1316992--1317035	19	2.3	19	96	0	79	52	4	6	36	1.49
1317087--1317141	19	2.9	19	100	0	110	52	5	5	36	1.48
1322659--1322847	85	2.2	85	92	2	319	37	4	6	51	1.48
1323573--1323667	40	2.4	38	85	13	129	46	4	7	42	1.51
1332722--1332794	38	1.9	38	97	0	137	28	10	30	30	1.91
1340848--1340898	18	2.8	18	90	0	75	27	29	21	21	1.99
1340848--1340925	18	4.0	21	79	11	62	28	25	20	25	1.99
1342459--1342523	20	3.0	23	76	17	75	27	21	16	33	1.95
1345962--1346066	21	5.1	21	87	4	153	31	25	20	21	1.98
1347718--1347761	19	2.4	17	81	11	52	22	31	15	29	1.95
1349028--1349085	23	2.5	23	91	0	98	25	13	5	55	1.59
1352550--1352579	11	2.7	11	89	0	51	76	0	0	23	0.78
1361675--1361832	21	7.8	20	70	7	77	38	24	17	20	1.93
1361799--1362048	20	12.5	20	87	1	268	37	24	18	19	1.94
1362731--1362777	24	2.0	24	87	8	69	25	14	21	38	1.92
1365312--1365409	19	5.4	19	84	13	143	14	22	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365293--1365409	53	2.2	53	98	1	227	13	23	17	44	1.85
1365486--1365540	14	3.6	14	73	21	56	45	20	23	10	1.82
1365468--1365559	33	2.8	33	98	1	175	44	18	23	13	1.85
1365500--1365610	52	2.1	52	96	0	204	45	18	20	15	1.85
1365623--1365722	19	5.5	19	84	12	147	15	23	17	45	1.85
1365606--1365722	53	2.2	53	93	1	200	14	23	17	44	1.85
1365829--1365865	14	2.6	14	91	0	65	45	21	0	32	1.52
1367797--1367889	33	2.8	33	96	0	177	48	20	20	10	1.79
1367816--1367872	14	3.7	14	79	20	69	47	21	21	10	1.80
1367760--1367894	19	7.6	19	78	16	137	46	22	19	11	1.81
1367760--1367894	52	2.5	54	77	18	140	46	22	19	11	1.81
1367890--1368018	19	7.3	19	75	17	125	8	17	28	45	1.77
1367890--1367981	33	2.8	33	93	3	150	7	18	28	45	1.76
1368172--1368524	93	3.8	93	98	0	679	45	18	13	22	1.84
1368062--1368524	186	2.6	179	95	3	808	45	19	12	23	1.84
1370231--1370306	14	4.7	14	74	22	53	42	23	25	9	1.83
1370245--1370328	19	4.7	19	78	14	97	42	22	23	10	1.85
1370223--1370328	52	2.0	52	94	0	185	44	20	24	10	1.83
1370340--1370393	14	3.5	14	73	22	54	7	25	24	42	1.80
1370324--1370404	33	2.5	33	93	0	135	7	23	22	46	1.76
1370380--1370457	41	1.9	41	94	0	138	11	26	16	44	1.82
1370381--1370456	21	3.7	21	82	3	100	10	26	17	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370536--1370606	33	2.2	33	89	0	106	47	16	23	11	1.79
1370788--1370842	22	2.5	22	81	0	74	20	16	40	23	1.91
1370988--1371181	20	9.6	20	82	5	221	19	19	25	35	1.95
1370988--1371181	60	3.2	60	83	0	253	19	19	25	35	1.95
1371168--1371250	21	4.0	21	70	6	69	25	15	24	34	1.95
1375358--1375459	2	51.0	2	100	0	204	50	0	0	50	1.00
1375609--1375638	10	3.0	10	95	0	51	16	3	10	70	1.29
1379429--1379462	3	11.3	3	87	0	50	64	2	2	29	1.22
1379710--1380041	43	7.7	43	73	12	243	24	18	31	25	1.98
1379751--1380070	40	7.5	41	71	12	197	25	19	30	25	1.98
1379793--1380041	46	5.7	46	74	12	184	25	18	30	25	1.98
1379700--1380070	129	2.9	129	97	0	690	25	18	30	25	1.98
1380488--1380531	15	2.9	15	93	0	70	43	4	20	31	1.72
1380688--1381010	64	5.0	64	85	3	434	43	10	12	34	1.77
1380747--1380862	36	3.5	34	67	28	97	43	7	11	37	1.69
1380846--1381098	30	8.1	30	72	19	171	42	11	10	35	1.76
1380688--1381035	131	2.7	129	89	4	499	43	10	12	33	1.77
1380976--1381099	59	2.1	58	86	1	167	41	11	9	37	1.74
1381756--1381805	4	13.2	4	83	12	70	24	0	22	54	1.45
1389717--1389753	3	12.3	3	88	0	56	64	2	2	29	1.21
1393271--1393313	22	2.0	21	81	4	50	62	4	2	30	1.28
1393566--1393742	40	4.3	41	71	14	105	31	15	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393624--1393780	82	1.9	82	86	3	219	37	16	19	26	1.93
1393654--1393805	42	3.7	43	74	15	133	35	17	17	29	1.93
1393635--1393766	41	3.2	42	73	16	139	36	15	19	28	1.93
1393791--1393910	41	2.9	41	82	3	134	36	11	18	33	1.87
1395200--1395508	41	7.5	41	78	6	282	27	17	17	36	1.93
1401380--1401419	15	2.7	15	96	0	71	30	27	12	30	1.93
1401508--1401566	21	2.8	21	70	14	59	44	20	35	0	1.52
1401550--1401597	21	2.3	21	88	0	69	41	20	37	0	1.53
1402023--1402306	43	6.5	43	77	7	234	34	23	14	27	1.94
1402049--1402307	132	2.0	133	86	3	362	34	22	14	28	1.93
1402103--1402305	89	2.3	86	88	4	282	34	22	13	29	1.92
1402103--1402307	43	4.7	43	81	10	245	34	21	13	30	1.92
1412865--1412889	2	12.5	2	100	0	50	52	0	0	48	1.00
1430166--1430313	74	2.0	74	100	0	296	22	14	14	47	1.82
1436145--1436207	26	2.4	26	97	0	117	25	4	6	63	1.38
1436455--1436490	12	3.0	12	87	0	54	44	5	13	36	1.68
1436670--1437056	193	2.0	193	100	0	774	42	13	16	27	1.86
1437109--1437432	41	7.8	42	91	2	532	32	25	20	21	1.98
1437108--1437472	123	3.0	121	83	7	448	31	25	20	22	1.98
1437491--1437597	21	5.2	21	63	19	64	21	20	23	34	1.97
1437469--1437806	41	8.2	41	91	0	514	22	20	25	32	1.98
1437528--1437638	20	5.4	20	67	19	68	20	21	23	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437507--1437659	21	7.4	20	67	20	75	20	20	27	31	1.98
1437924--1437995	21	3.4	21	65	14	58	25	33	22	19	1.97
1437913--1438154	41	5.9	41	94	0	394	30	25	21	22	1.98
1437988--1438097	20	5.4	20	66	20	75	31	22	22	22	1.98
1437913--1438154	124	2.0	124	91	1	396	30	25	21	22	1.98
1439723--1439788	31	2.1	31	88	0	96	24	18	10	46	1.80
1442980--1443028	20	2.5	20	80	16	57	28	10	24	36	1.88
1445751--1445791	2	20.5	2	100	0	82	48	0	0	51	1.00
1449979--1450051	23	3.2	23	90	0	110	35	5	20	38	1.76
1450463--1450530	23	3.0	23	88	0	100	36	5	19	38	1.76

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