genome.fa.s8275.2.7.7.80.10.50.1000.6.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: VEPZ01008275.1 Hibiscus syriacus cultivar Beakdansim tig00110933_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991061

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 944 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)
1259648--1259710	24	2.7	23	80	7	72	52	11	17	19	1.74
1259915--1259968	27	2.0	26	96	3	99	33	29	7	29	1.85
1260061--1260181	58	2.1	59	82	3	145	33	19	4	41	1.73
1260403--1260520	60	2.0	60	82	0	146	43	5	15	36	1.69
1261007--1261061	26	2.0	26	82	10	65	40	16	1	41	1.59
1265304--1265342	20	2.0	20	89	0	60	23	7	5	64	1.40
1275624--1275657	13	2.6	13	90	0	50	47	0	8	44	1.34
1286574--1286611	20	1.9	20	88	0	58	42	0	0	57	0.98
1286574--1286612	21	1.9	20	84	5	51	43	0	0	56	0.99
1287237--1287301	28	2.3	28	83	0	94	44	13	10	30	1.78
1288187--1288236	25	2.0	25	92	3	84	42	4	6	48	1.46
1289308--1289352	2	23.5	2	86	8	67	0	46	0	53	1.00
1291563--1291604	22	1.9	22	100	0	84	16	11	14	57	1.66
1305557--1305592	2	18.0	2	100	0	72	50	0	0	50	1.00
1305918--1305952	18	1.9	18	88	0	52	31	54	5	8	1.54
1305967--1306080	18	6.5	18	68	9	65	38	46	9	5	1.59
1308016--1308079	18	3.6	18	86	0	83	42	34	18	4	1.71
1308463--1308509	18	2.7	18	83	3	60	51	23	17	8	1.72
1309556--1309630	37	2.0	37	94	0	132	49	9	5	36	1.58
1310936--1310976	20	2.0	20	100	0	82	19	26	4	48	1.69
1311516--1311789	4	68.5	4	99	0	539	50	24	0	25	1.50
1321089--1321125	20	1.9	19	89	10	58	45	10	24	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321279--1321309	15	2.1	15	93	0	53	54	0	0	45	0.99
1326816--1326853	18	2.2	18	85	4	51	63	2	2	31	1.22
1336062--1336087	13	2.0	13	100	0	52	15	23	23	38	1.92
1337037--1337086	2	25.0	2	100	0	100	50	0	0	50	1.00
1339924--1339975	27	1.9	27	84	7	70	25	5	13	55	1.60
1347259--1347397	60	2.3	60	81	4	147	41	4	21	33	1.73
1349490--1349535	15	2.9	15	90	9	65	65	4	0	30	1.12
1353323--1353385	19	3.2	21	78	13	80	38	3	7	50	1.47
1355623--1355672	21	2.4	21	86	6	66	70	10	0	20	1.16
1356014--1356123	27	4.1	27	100	0	220	26	7	7	59	1.51
1356028--1356107	17	5.5	17	63	36	62	26	7	7	58	1.52
1356218--1356264	24	2.0	24	91	0	76	23	10	12	53	1.70
1356987--1357036	25	2.0	25	100	0	100	48	8	20	24	1.76
1373100--1373133	2	17.0	2	100	0	68	50	0	0	50	1.00
1377428--1377648	85	2.6	87	90	3	349	36	21	15	26	1.94
1378901--1378974	37	2.0	37	97	0	139	54	1	8	36	1.39
1379575--1379603	2	14.5	2	100	0	58	48	0	0	51	1.00
1384607--1384644	14	2.7	15	84	12	53	65	7	7	18	1.43
1387309--1387373	31	2.1	31	85	0	85	33	9	6	50	1.59
1392887--1392964	21	3.8	21	82	3	104	20	15	30	33	1.94
1392744--1392927	91	2.0	89	94	4	325	29	15	23	31	1.95
1392888--1392979	41	2.2	41	94	0	157	22	15	30	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1392888--1392980	20	4.5	21	81	4	91	23	15	30	31	1.95
1395030--1395096	26	2.6	26	70	11	66	52	4	1	41	1.31
1395163--1395230	28	2.4	29	85	7	88	32	20	19	27	1.97
1395775--1395822	2	24.5	2	95	4	89	50	0	0	50	1.00
1397227--1397264	20	1.9	20	88	0	58	36	10	5	47	1.61
1405965--1406053	29	3.1	29	81	0	115	17	39	28	14	1.89
1406068--1406093	10	2.6	10	100	0	52	19	50	19	11	1.77
1406082--1406180	33	3.0	33	96	0	180	27	37	20	15	1.92
1406371--1406406	11	3.2	11	84	7	54	22	22	19	36	1.95
1406690--1406753	27	2.3	29	76	15	73	35	1	15	46	1.56
1406778--1406848	37	2.0	36	86	13	103	42	0	9	47	1.36
1406945--1406984	21	1.9	21	100	0	80	27	0	15	57	1.38
1407153--1407226	30	2.4	30	78	14	80	39	1	9	50	1.44
1409107--1409164	26	2.2	25	87	6	80	58	12	0	29	1.34
1409112--1409192	21	3.6	22	72	19	78	56	13	0	29	1.37
1414514--1414545	16	2.0	16	100	0	64	43	6	0	50	1.27
1418050--1418102	20	2.7	20	82	11	72	18	43	20	16	1.88
1418050--1418113	21	3.1	21	84	6	87	18	39	23	18	1.93
1421416--1421482	26	2.6	26	100	0	134	23	23	31	20	1.98
1423658--1424176	109	4.8	108	84	7	586	27	26	15	30	1.96
1423563--1424242	217	3.1	215	79	8	687	28	25	15	30	1.96
1423604--1424215	55	11.2	55	80	7	599	27	26	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423489--1424212	55	13.3	55	76	10	381	27	25	15	31	1.95
1424204--1425238	155	6.5	155	86	6	1057	22	25	19	32	1.97
1424204--1425238	51	19.6	51	81	9	967	22	25	19	32	1.97
1425469--1425624	36	4.3	36	90	0	222	19	19	24	35	1.95
1432868--1432934	26	2.6	26	100	0	134	23	23	31	20	1.98
1435618--1435652	2	17.5	2	100	0	70	48	0	0	51	1.00
1442895--1442980	33	2.7	31	81	15	95	20	8	4	66	1.37
1442931--1442976	23	2.0	23	83	8	58	17	10	2	69	1.27
1443018--1443075	10	5.6	10	73	15	55	67	6	5	20	1.34
1443018--1443075	21	2.8	21	77	15	66	67	6	5	20	1.34
1443892--1443933	11	3.7	11	81	6	57	57	0	2	40	1.12
1443887--1443936	23	2.2	23	100	0	100	50	0	6	44	1.26
1444783--1444839	30	1.9	30	92	7	98	19	22	17	40	1.91
1449499--1449526	2	14.0	2	100	0	56	50	0	0	50	1.00
1462671--1462700	2	15.0	2	100	0	60	0	50	0	50	1.00
1465914--1466025	35	3.2	35	85	0	161	42	22	0	34	1.54
1468085--1468194	35	3.1	35	88	0	157	32	0	22	43	1.60
1471305--1471392	32	3.1	27	78	16	88	50	1	0	48	1.08
1471322--1471371	16	3.1	17	80	8	68	54	0	0	46	1.00
1471328--1471397	27	2.6	26	84	10	88	54	1	1	42	1.18
1479342--1479381	2	21.5	2	85	14	59	47	0	0	52	1.00
1480537--1480583	19	2.4	19	85	7	58	27	8	23	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481330--1481409	29	2.7	29	76	18	76	37	6	10	46	1.63
1493978--1494138	84	1.9	85	88	1	243	31	17	5	45	1.71
1495709--1495786	39	2.0	39	100	0	156	30	17	17	33	1.94
1500619--1500689	30	2.4	30	83	4	81	30	2	5	60	1.34
1500679--1500728	2	25.5	2	91	4	84	46	0	0	54	1.00
1500813--1500881	17	3.6	20	78	16	67	26	7	0	66	1.17
1500847--1500881	16	2.1	18	89	10	56	25	5	0	68	1.11
1500978--1501016	16	2.4	16	83	8	53	23	7	0	69	1.14
1504067--1504127	22	2.7	22	82	7	79	80	6	13	0	0.90
1504067--1504135	22	3.3	21	81	4	77	79	5	13	1	0.97
1504067--1504135	20	3.3	20	82	8	75	79	5	13	1	0.97
1505632--1505736	36	2.9	36	91	5	167	24	24	14	36	1.93
1505632--1505741	37	3.0	37	90	5	170	26	24	13	35	1.93
1505751--1505820	36	1.9	36	85	0	95	27	21	12	38	1.90
1505766--1505837	36	2.0	36	83	0	90	26	23	12	37	1.90
1505779--1505937	67	2.4	67	87	4	223	32	22	11	33	1.90
1506771--1507833	100	10.3	103	89	5	1528	33	26	18	22	1.96
1506771--1507833	205	5.1	204	92	3	1577	33	26	18	22	1.96
1508804--1508900	34	2.9	33	79	7	99	29	3	6	60	1.36
1509029--1509062	17	2.1	16	88	5	50	26	8	0	64	1.22
1512828--1512877	19	2.5	19	79	17	57	42	2	4	52	1.31
1512834--1512875	21	2.0	22	86	9	61	42	2	4	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512828--1512878	20	2.6	19	78	9	57	41	1	3	52	1.31
1513072--1513139	31	2.2	31	83	0	82	35	11	25	27	1.91
1517926--1518036	55	2.0	54	89	1	168	37	4	4	53	1.42
1522841--1523020	95	1.9	95	100	0	360	22	33	16	28	1.95
1524142--1524182	17	2.4	18	80	15	52	65	0	0	34	0.93
1524723--1524847	60	2.1	60	81	3	144	36	16	10	36	1.82
1525314--1525369	21	2.8	20	76	10	60	17	19	21	41	1.91
1526148--1526174	6	4.5	6	100	0	54	0	14	51	33	1.43
1526295--1526404	21	5.3	21	76	12	102	32	27	20	20	1.97
1526265--1526413	42	3.6	42	83	3	212	34	22	20	22	1.97

Tables:   1   2   3   4   5   6   7   8