genome.fa.s7916.2.7.7.80.10.50.1000.6.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: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3725575

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

This is table  6  of  16  ( 1895 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)
1230673--1230717	23	2.0	23	100	0	90	35	0	0	64	0.94
1230677--1230717	20	2.0	20	100	0	82	34	0	0	65	0.93
1233950--1234008	30	1.9	31	96	3	111	38	13	10	37	1.79
1247625--1247690	30	2.2	30	89	5	98	36	12	7	43	1.70
1250326--1250381	19	2.9	19	85	12	78	16	21	28	33	1.95
1250326--1250374	10	4.8	11	83	16	70	16	20	26	36	1.93
1250327--1250381	9	5.6	10	83	12	78	14	21	29	34	1.93
1250414--1250444	5	6.2	5	100	0	62	19	58	22	0	1.40
1250458--1250533	29	2.6	29	87	0	98	21	9	27	42	1.83
1257585--1257640	19	2.9	19	85	12	78	16	21	28	33	1.95
1257585--1257633	10	4.8	11	83	16	70	16	20	26	36	1.93
1257586--1257640	9	5.6	10	83	12	78	14	21	29	34	1.93
1257643--1257691	13	4.0	13	82	15	68	16	48	20	14	1.80
1257699--1257774	29	2.6	29	87	0	98	21	9	27	42	1.83
1275104--1275196	31	3.0	30	88	3	132	53	7	17	21	1.68
1281611--1281670	3	20.3	3	79	16	63	66	1	0	31	1.01
1281611--1281670	18	3.2	18	81	13	77	66	1	0	31	1.01
1281615--1281679	12	5.2	12	73	19	53	69	1	1	27	1.07
1281612--1281679	35	1.9	35	85	11	95	69	1	1	27	1.06
1281890--1281948	17	3.4	17	68	25	50	15	25	11	47	1.79
1282013--1282102	37	2.4	39	94	5	166	20	21	10	48	1.78
1282046--1282933	113	7.9	113	89	3	1276	28	19	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282046--1282933	337	2.6	339	89	3	1317	28	19	14	37	1.91
1283327--1283381	22	2.5	22	87	0	83	36	14	14	34	1.87
1283742--1283907	54	3.1	54	91	3	262	22	22	16	37	1.94
1288117--1288152	18	2.0	18	94	0	63	2	13	0	83	0.76
1288112--1288164	25	2.1	25	82	0	61	5	18	1	73	1.12
1291454--1291518	27	2.3	28	86	5	87	60	9	10	20	1.57
1292992--1293045	19	2.9	17	82	17	63	70	0	1	27	0.98
1292992--1293033	14	3.1	14	83	6	52	71	0	0	28	0.86
1295132--1295184	3	19.0	3	81	14	60	66	1	0	32	1.03
1295132--1295185	19	2.8	20	86	5	67	66	1	0	31	1.02
1295132--1295194	22	2.8	22	85	2	72	68	3	0	28	1.05
1295147--1295194	25	2.0	25	92	8	82	70	4	0	25	1.04
1302011--1302103	31	3.0	31	90	4	143	29	23	19	27	1.98
1303894--1303946	23	2.3	23	90	6	81	9	43	26	20	1.82
1321470--1321640	60	2.9	61	76	14	169	42	2	9	46	1.49
1321640--1321695	23	2.3	25	81	9	71	44	3	3	48	1.37
1321656--1321717	24	2.7	23	82	5	63	46	0	3	50	1.17
1322133--1322173	2	20.5	2	100	0	82	48	0	0	51	1.00
1323008--1323324	159	2.0	157	98	1	616	33	15	15	35	1.90
1354864--1354913	7	7.1	7	93	0	73	54	0	0	46	1.00
1355501--1355557	2	28.5	2	100	0	114	49	0	0	50	1.00
1356331--1356458	64	2.0	64	95	0	229	33	10	26	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1360821--1360858	18	2.2	17	90	4	58	21	26	0	52	1.47
1361173--1361297	31	4.0	31	92	0	187	36	23	18	21	1.95
1367714--1367749	2	18.0	2	100	0	72	50	0	0	50	1.00
1368708--1368773	33	2.0	33	100	0	132	42	18	9	30	1.81
1370155--1370185	16	2.0	16	93	6	55	51	0	0	48	1.00
1370548--1370598	19	2.6	20	90	3	77	43	23	17	15	1.88
1370548--1370722	20	8.6	20	75	10	95	38	21	22	17	1.93
1370830--1370928	6	16.5	6	100	0	198	33	50	16	0	1.45
1371620--1371651	6	5.3	6	96	0	55	0	18	53	28	1.45
1371673--1371723	19	2.6	20	90	3	77	15	17	23	43	1.88
1375676--1375701	3	8.7	3	100	0	52	30	0	0	69	0.89
1380126--1380164	20	1.9	21	89	5	62	20	20	23	35	1.96
1392295--1392360	29	2.2	29	79	10	71	50	10	6	33	1.62
1395640--1395712	18	3.9	18	80	7	83	21	19	28	30	1.98
1397016--1397075	23	2.6	23	91	0	93	20	26	26	26	1.99
1399287--1399331	21	2.1	21	83	0	54	42	6	2	48	1.41
1401231--1401273	15	2.9	15	89	0	68	27	23	23	25	2.00
1401680--1401738	31	1.9	31	86	6	84	42	16	18	22	1.89
1402315--1402408	41	2.3	41	88	0	143	18	12	17	52	1.75
1402469--1402547	24	3.3	24	90	0	131	26	11	10	51	1.69
1402793--1402894	38	2.7	38	84	0	123	46	9	13	30	1.76
1402994--1403055	2	31.0	2	100	0	124	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)
1403156--1403215	28	2.1	28	100	0	120	33	20	23	23	1.97
1407554--1407646	21	4.5	21	78	4	100	39	18	24	17	1.91
1407635--1407728	20	4.7	20	77	2	91	34	24	18	23	1.96
1407554--1407646	41	2.3	41	100	0	186	39	18	24	17	1.91
1407632--1407708	40	1.9	40	89	0	118	38	20	16	23	1.92
1407916--1407959	22	2.0	22	95	0	79	20	45	15	18	1.85
1408223--1408260	20	1.9	20	88	0	58	13	15	21	50	1.78
1408375--1408424	21	2.3	21	80	10	57	20	6	16	58	1.59
1409562--1409606	18	2.5	18	88	0	72	26	44	15	13	1.83
1410088--1410154	20	3.4	20	81	2	73	38	23	22	14	1.92
1410143--1410200	14	3.9	14	79	16	71	48	24	17	10	1.78
1410127--1410216	32	2.8	33	94	3	164	46	22	18	12	1.82
1410282--1410336	19	2.8	19	86	5	65	16	23	23	36	1.94
1410291--1410336	20	2.4	19	92	3	74	15	23	26	34	1.94
1412199--1412234	14	2.6	14	90	0	54	30	0	22	47	1.52
1412351--1412423	19	3.8	19	94	0	128	46	16	20	16	1.84
1412423--1412500	20	3.9	20	91	0	120	19	23	20	37	1.95
1413558--1413611	24	2.2	24	90	0	81	24	16	20	38	1.92
1413786--1413810	12	2.1	12	100	0	50	72	0	28	0	0.86
1416103--1416229	33	3.8	33	86	4	184	43	18	22	15	1.88
1416104--1416236	66	2.0	66	94	0	230	42	18	22	17	1.89
1416229--1416270	19	2.2	19	91	0	66	16	19	23	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416238--1416304	19	3.8	19	75	18	81	11	22	20	44	1.84
1416408--1416444	14	2.6	14	91	0	65	45	24	0	29	1.53
1417797--1417863	21	3.2	21	68	4	55	19	20	35	23	1.95
1417797--1417919	42	2.9	41	80	7	113	22	17	36	22	1.95
1419947--1420045	33	3.0	33	89	1	144	39	26	23	11	1.88
1419922--1420086	19	9.1	19	74	17	136	43	22	22	12	1.86
1420082--1420148	19	3.5	19	83	2	80	10	13	25	50	1.73
1420665--1420717	20	2.7	20	93	0	88	26	20	28	24	1.99
1420726--1420779	20	2.7	20	91	0	90	25	16	24	33	1.96
1420666--1420800	61	2.2	61	80	2	146	22	19	24	33	1.97
1420850--1420890	21	2.0	21	85	0	55	34	31	17	17	1.93
1422312--1422699	183	2.1	184	91	3	622	43	3	7	45	1.48
1425706--1425764	29	2.0	29	96	0	109	47	10	18	23	1.79
1443640--1443686	23	2.0	23	84	15	62	27	2	0	70	0.99
1443928--1443968	8	5.1	8	81	18	50	24	0	0	75	0.80
1443925--1443967	17	2.6	17	85	7	63	27	0	0	72	0.85
1443910--1443998	25	3.3	25	77	17	72	26	3	1	68	1.12
1443926--1443971	16	2.9	16	78	18	51	26	0	0	73	0.83
1445269--1445305	19	1.9	20	88	5	58	10	18	2	67	1.32
1448684--1448749	15	4.6	14	78	10	62	78	6	15	0	0.93
1448701--1448749	16	3.4	16	73	21	54	79	6	14	0	0.91
1449363--1449439	22	3.5	22	96	0	145	36	27	11	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449853--1449888	18	2.0	18	88	0	54	19	8	25	47	1.77
1450401--1451670	106	12.0	106	90	1	1919	34	24	17	22	1.96
1452982--1453013	2	16.5	2	93	6	57	50	0	0	50	1.00
1453200--1453241	9	4.8	9	85	8	52	23	0	0	76	0.79
1453199--1453240	16	2.6	16	85	11	50	23	0	0	76	0.79
1453202--1453268	29	2.4	27	80	11	73	23	2	1	71	1.08
1460671--1460731	2	30.5	2	100	0	122	49	0	0	50	1.00
1461131--1461175	20	2.2	20	92	0	72	35	8	26	28	1.87
1461397--1461445	23	2.1	23	100	0	98	44	28	4	22	1.71
1464448--1464535	31	2.8	31	88	6	142	43	11	17	28	1.83

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