genome.fa.s6936.2.7.7.80.10.50.1000.6.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: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2176229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 982 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)
1349066--1349122	28	2.0	28	83	6	71	29	0	3	66	1.08
1353993--1354056	29	2.2	29	100	0	128	29	14	25	31	1.94
1356907--1357016	33	3.4	30	72	14	85	41	3	10	43	1.57
1363879--1363917	20	1.9	21	89	5	62	12	25	38	23	1.90
1367218--1367257	21	1.9	21	85	10	55	35	10	2	52	1.48
1369544--1370037	181	2.7	180	75	8	421	38	10	9	41	1.74
1371929--1372107	55	3.3	54	78	6	198	27	22	22	26	1.99
1373933--1374003	36	2.0	35	88	2	106	46	12	5	35	1.66
1378500--1378579	36	2.2	36	91	2	126	45	17	5	32	1.70
1378518--1378578	21	3.2	21	63	26	53	47	14	4	32	1.66
1379899--1380334	181	2.4	182	91	1	669	42	13	16	27	1.86
1380246--1380301	20	2.8	19	81	7	67	55	8	16	19	1.67
1380466--1380985	183	2.8	183	96	0	941	34	15	16	33	1.90
1380859--1381105	120	2.1	120	91	0	395	32	13	15	38	1.87
1380678--1381288	303	2.0	303	95	0	1107	34	14	16	34	1.89
1380979--1381471	183	2.7	183	95	0	878	34	15	16	33	1.90
1380497--1381756	486	2.6	486	96	0	2315	34	14	16	34	1.89
1381162--1381756	303	2.0	303	95	0	1064	34	14	15	35	1.88
1381345--1381591	120	2.1	120	95	0	440	32	14	14	38	1.86
1384936--1384996	23	2.7	23	81	0	77	34	14	6	44	1.72
1384779--1385024	87	2.8	87	93	0	420	34	15	8	42	1.77
1385793--1385819	6	4.5	6	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386229--1386277	20	2.5	20	86	6	64	51	2	2	44	1.24
1386215--1386278	29	2.2	27	76	15	65	48	1	3	46	1.27
1387215--1387241	2	13.5	2	100	0	54	48	0	0	51	1.00
1391730--1391819	32	2.9	30	85	9	128	31	23	21	24	1.98
1393304--1393330	6	4.5	6	100	0	54	48	0	0	51	1.00
1393740--1393788	20	2.5	20	86	6	64	51	2	2	44	1.24
1393726--1393789	29	2.2	27	76	15	65	48	1	3	46	1.27
1394732--1394764	2	16.5	2	100	0	66	48	0	0	51	1.00
1399254--1399343	32	2.9	30	85	9	128	31	23	21	24	1.98
1404876--1404959	42	2.0	42	97	0	159	30	29	0	39	1.57
1408029--1408112	22	3.8	22	93	0	141	33	25	21	20	1.97
1408135--1408205	32	2.3	30	88	9	115	30	23	21	23	1.99
1408435--1408488	2	27.0	2	100	0	108	50	0	0	50	1.00
1411145--1411205	22	2.8	23	87	9	92	21	22	29	26	1.99
1412578--1412627	2	25.5	2	83	4	66	58	0	42	0	0.98
1412578--1412622	14	3.2	14	100	0	90	57	0	42	0	0.98
1421494--1421665	94	1.8	94	82	2	220	29	16	27	26	1.97
1422024--1422183	55	2.9	55	95	0	275	28	22	20	29	1.98
1439627--1439665	16	2.6	15	88	8	53	28	7	20	43	1.79
1439535--1439661	45	2.9	45	87	3	161	35	9	19	35	1.84
1439604--1439665	14	4.4	14	72	22	58	32	6	20	40	1.78
1439761--1439805	23	2.0	23	86	8	65	20	22	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442733--1442758	3	8.7	3	100	0	52	34	0	30	34	1.58
1449209--1449342	45	3.0	46	86	2	173	35	8	19	35	1.83
1449278--1449342	15	4.4	15	75	11	64	32	7	20	40	1.80
1449427--1449528	23	4.5	22	74	9	89	19	18	25	36	1.95
1449427--1449528	46	2.2	46	83	10	120	19	18	25	36	1.95
1449689--1449745	2	28.5	2	81	0	69	42	0	8	49	1.34
1449686--1449749	12	5.5	12	78	14	71	40	0	10	48	1.38
1451403--1451543	70	2.0	70	100	0	282	24	21	18	36	1.95
1458366--1458439	33	2.2	34	90	2	114	33	13	21	31	1.92
1459530--1459574	23	2.0	22	82	4	54	46	2	2	48	1.26
1461646--1461681	16	2.2	16	95	0	63	61	19	13	5	1.52
1465638--1465674	15	2.5	15	95	4	67	27	13	16	43	1.85
1465879--1465917	19	2.1	19	85	0	51	33	2	7	56	1.41
1468495--1468532	14	2.5	16	83	16	62	52	10	18	18	1.73
1468502--1468537	14	2.6	14	95	0	63	47	11	22	19	1.80
1469480--1469526	23	2.0	24	84	12	62	8	10	10	70	1.35
1470756--1470861	31	3.3	30	69	14	77	37	14	17	30	1.90
1470589--1470861	65	4.1	67	86	2	356	39	13	19	27	1.89
1470589--1470843	130	1.9	130	89	1	393	40	14	19	26	1.90
1479540--1479566	12	2.2	12	100	0	54	59	7	18	14	1.58
1481209--1481236	11	2.5	11	100	0	56	21	10	42	25	1.85
1492618--1492694	3	25.7	3	97	0	145	64	0	1	33	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1495236--1495284	20	2.5	20	79	0	62	28	16	16	38	1.90
1502253--1502302	20	2.6	19	81	18	59	30	22	14	34	1.93
1502162--1502448	143	2.0	144	99	0	567	30	20	18	30	1.96
1502396--1502445	20	2.6	19	81	18	59	30	22	14	34	1.93
1504206--1504286	34	2.4	34	95	2	146	40	13	18	27	1.88
1504676--1505114	57	7.8	57	90	3	672	35	10	18	35	1.85
1506619--1506663	3	15.7	3	90	9	76	66	0	0	33	0.92
1509198--1509232	17	2.1	17	89	10	54	34	5	11	48	1.63
1511102--1511152	26	2.0	26	92	0	84	27	17	25	29	1.98
1514948--1515140	5	38.6	5	98	0	377	39	0	20	40	1.52
1516698--1516759	22	2.9	22	69	4	56	41	11	16	30	1.83
1526391--1526469	21	3.7	21	77	12	79	24	15	26	34	1.94
1529301--1529330	4	7.5	4	92	0	51	46	23	3	26	1.68
1530618--1530651	15	2.3	15	94	0	59	17	20	50	11	1.77
1533358--1533411	27	2.0	27	88	0	81	24	9	22	44	1.81
1533826--1533856	15	2.1	15	93	0	53	54	3	0	41	1.16
1540714--1540786	23	3.2	23	76	1	85	35	21	23	19	1.96
1540775--1540822	23	2.1	23	84	3	62	43	27	10	18	1.82
1541389--1541463	36	2.1	37	85	9	102	21	26	18	33	1.96
1547521--1547566	23	2.0	23	91	0	74	36	26	21	15	1.93
1547613--1547691	21	3.8	20	77	9	70	40	17	15	26	1.89
1547610--1547691	42	2.0	42	82	0	101	40	18	14	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548160--1548251	44	2.1	44	87	0	130	28	22	17	31	1.97
1548342--1548384	15	2.9	15	89	0	68	23	20	23	32	1.98
1552817--1553016	45	4.4	45	86	4	251	30	23	7	39	1.81
1552824--1553001	92	1.9	91	86	3	250	30	23	7	38	1.83
1553104--1553220	61	1.9	61	85	0	162	29	28	17	23	1.97
1557842--1557928	3	28.7	3	88	2	129	36	1	0	62	1.03
1558041--1558081	16	2.6	16	92	0	73	7	53	19	19	1.68
1570458--1570514	5	11.4	5	75	14	55	80	0	19	0	0.71
1570458--1570515	20	2.9	19	82	7	71	81	0	18	0	0.70
1570827--1570871	16	2.8	16	83	10	56	28	8	6	55	1.56
1571651--1571964	83	3.8	83	93	1	515	26	13	24	35	1.92
1571917--1572231	115	2.7	115	96	0	569	33	13	20	32	1.92
1572906--1573932	116	9.0	116	91	2	1324	37	13	18	30	1.90
1573898--1574081	84	2.2	82	81	3	199	38	16	17	27	1.91
1574249--1574314	3	21.7	3	90	3	96	36	1	0	62	1.05
1574316--1574340	2	12.5	2	100	0	50	52	0	0	48	1.00
1574431--1574468	16	2.4	16	100	0	76	5	57	18	18	1.58
1584301--1584370	34	2.1	32	86	5	95	22	28	14	34	1.93
1584631--1584672	21	2.0	22	90	4	68	19	28	26	26	1.98
1584724--1584791	20	3.3	20	81	4	82	30	22	27	19	1.97
1584813--1584953	21	6.7	20	83	11	151	23	20	34	21	1.97
1585032--1585091	29	2.0	31	93	6	106	43	15	6	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585896--1586153	126	2.0	127	89	0	392	31	22	15	30	1.95
1598010--1598242	41	5.7	41	79	8	242	33	14	20	32	1.93
1598012--1598226	81	2.6	81	85	2	270	35	13	20	30	1.91
1599946--1599970	11	2.3	11	100	0	50	48	12	16	24	1.79
1607612--1607651	18	2.2	18	86	0	53	40	27	0	32	1.57
1607621--1607656	18	2.0	18	100	0	72	38	22	0	38	1.54
1611075--1611120	23	2.0	23	83	8	58	54	17	2	26	1.54
1614351--1614430	24	3.4	24	76	10	85	32	22	22	22	1.98
1614388--1614498	23	4.8	23	86	0	141	32	23	22	21	1.98
1614364--1614498	46	2.9	46	83	5	148	32	23	22	20	1.98

Tables:   1   2   3   4   5   6   7   8   9