genome.fa.s7754.2.7.7.80.10.50.1000.6.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

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

This is table  6  of  15  ( 1710 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)
1179446--1179981	273	2.0	274	89	2	819	42	10	15	31	1.81
1186153--1186308	44	3.5	44	84	3	188	39	9	7	43	1.65
1186202--1186308	45	2.4	44	92	3	178	41	11	5	42	1.64
1187196--1187257	24	2.6	24	89	0	97	50	11	6	32	1.64
1188996--1189089	43	2.2	43	88	1	136	23	1	28	46	1.59
1189021--1189090	22	3.2	22	69	17	65	22	0	28	48	1.51
1190538--1190663	60	2.1	60	95	1	227	32	19	14	34	1.91
1195164--1195197	18	1.9	17	88	5	50	52	5	2	38	1.41
1198619--1198778	64	2.5	65	81	8	170	33	20	20	26	1.96
1205901--1206014	58	2.0	57	98	1	219	42	24	9	23	1.84
1215659--1215705	18	2.6	19	77	12	55	59	2	0	38	1.09
1215655--1215715	18	3.3	18	73	15	52	54	1	1	42	1.20
1217508--1217682	86	2.0	87	98	1	343	44	10	11	34	1.75
1220478--1220511	17	2.0	17	94	0	59	55	0	0	44	0.99
1220530--1220567	17	2.2	18	90	4	60	73	0	7	18	1.06
1223712--1223785	34	2.1	34	87	9	105	10	12	16	60	1.58
1225874--1225937	13	4.8	13	75	7	56	71	0	0	28	0.86
1226490--1227272	391	2.0	390	95	0	1413	26	10	15	47	1.78
1227931--1227987	30	1.9	30	92	0	96	26	8	35	29	1.87
1229779--1229822	22	2.0	22	100	0	88	59	4	13	22	1.53
1231868--1231912	22	2.0	23	86	4	65	42	11	0	46	1.39
1242306--1242361	23	2.5	23	77	5	62	57	1	3	37	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242984--1243028	19	2.4	19	88	7	65	15	0	6	77	0.96
1243231--1243287	24	2.4	24	87	0	87	28	17	10	43	1.82
1246050--1246104	24	2.4	23	79	8	67	54	0	5	40	1.23
1248273--1248356	39	2.2	39	97	0	159	30	9	15	44	1.78
1264502--1264589	30	2.9	31	88	6	112	26	0	10	63	1.26
1264505--1264584	19	4.7	18	69	26	66	26	0	10	63	1.25
1264541--1264589	14	3.4	14	74	20	55	28	0	10	61	1.29
1269159--1269204	19	2.5	19	80	16	53	65	4	2	28	1.23
1272899--1272944	22	2.0	23	84	12	60	50	0	10	39	1.38
1274567--1274616	22	2.4	21	70	16	50	30	18	8	44	1.78
1296057--1296108	23	2.3	23	93	0	86	48	7	0	44	1.31
1297807--1297836	15	2.0	15	93	0	51	56	6	0	36	1.26
1299236--1299263	13	2.2	13	100	0	56	42	0	0	57	0.99
1305746--1305827	29	2.8	29	94	1	137	32	14	9	42	1.79
1310512--1310593	29	2.8	29	92	1	128	34	14	8	42	1.76
1314998--1315105	52	2.1	52	98	0	207	37	14	11	36	1.82
1315801--1315853	21	2.5	21	81	6	72	20	26	18	33	1.96
1315843--1315894	21	2.5	21	87	3	70	38	17	23	21	1.93
1315883--1315977	20	4.7	20	74	11	77	36	24	17	21	1.94
1315880--1315978	41	2.4	41	91	0	162	38	23	17	21	1.93
1316150--1316200	22	2.3	22	96	0	93	19	45	15	19	1.86
1316541--1316608	20	3.5	19	84	6	82	41	25	20	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316657--1316726	32	2.1	34	89	5	108	12	24	18	44	1.85
1316718--1316769	20	2.6	20	85	11	79	15	19	21	44	1.87
1318095--1318129	18	1.9	18	100	0	70	28	48	11	11	1.74
1318740--1318832	33	2.8	33	95	1	159	48	20	18	12	1.80
1318755--1318821	14	4.4	15	74	22	68	49	22	17	10	1.77
1318681--1318838	20	8.6	19	71	17	93	44	22	19	13	1.86
1318827--1318928	19	5.6	19	77	13	81	15	19	20	44	1.87
1318875--1318971	20	4.9	19	79	5	77	14	20	19	45	1.85
1318893--1318968	20	3.9	19	84	5	80	15	23	19	40	1.90
1319334--1319422	42	2.1	42	87	0	124	23	40	14	21	1.90
1319357--1319432	21	3.6	21	72	0	62	23	32	22	21	1.98
1319334--1319442	42	2.6	42	81	8	114	22	39	16	21	1.92
1320828--1320863	14	2.6	14	90	0	54	30	0	22	47	1.52
1321061--1321113	20	2.7	20	97	2	99	15	20	16	47	1.83
1321118--1321166	20	2.5	20	93	0	80	18	20	26	34	1.95
1321081--1321188	54	2.0	53	85	5	146	17	23	21	37	1.94
1330203--1330237	13	2.7	13	86	0	52	11	25	0	62	1.28
1332858--1332900	20	2.2	20	86	0	59	30	13	20	34	1.92
1335900--1335949	24	2.1	24	92	0	82	38	20	20	22	1.94
1336681--1336770	21	4.3	21	81	13	105	16	16	24	42	1.88
1336675--1336813	62	2.2	62	83	5	174	20	17	21	40	1.92
1336779--1336830	20	2.5	21	87	3	70	21	23	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336820--1336872	21	2.5	22	81	6	74	33	18	26	20	1.96
1348781--1348840	21	2.9	21	97	0	111	40	21	18	20	1.92
1352741--1352965	125	1.8	125	89	1	353	35	15	25	23	1.94
1354140--1354337	36	5.5	36	84	2	229	35	23	19	20	1.96
1354140--1354337	108	1.8	107	82	4	254	35	23	19	20	1.96
1354718--1355546	51	15.8	53	86	6	991	32	19	26	21	1.97
1354718--1355546	104	7.9	104	86	6	1023	32	19	26	21	1.97
1355546--1355811	108	2.5	108	87	4	371	29	14	28	27	1.95
1355523--1355858	53	6.2	54	80	7	339	30	14	27	27	1.95
1360827--1360956	27	4.7	27	74	7	102	49	5	4	40	1.46
1360883--1360987	27	3.8	27	81	10	97	49	2	3	43	1.35
1366994--1367030	20	1.9	19	89	10	58	24	18	5	51	1.67
1376059--1376084	2	13.0	2	100	0	52	50	0	0	50	1.00
1379341--1379420	24	3.3	24	80	0	97	26	12	17	43	1.84
1381498--1381554	13	4.6	13	85	10	84	24	54	14	7	1.64
1383694--1383761	24	2.8	24	81	0	82	25	16	17	41	1.89
1385846--1385877	15	2.1	15	100	0	64	21	50	21	6	1.71
1385870--1385903	17	1.9	17	88	5	50	17	44	23	14	1.86
1388014--1388077	24	2.7	24	87	0	92	26	17	18	37	1.93
1392314--1392377	24	2.7	24	80	0	74	23	18	20	37	1.94
1398872--1398935	24	2.7	24	85	0	92	26	15	18	39	1.91
1398865--1398952	24	3.7	24	79	0	86	26	12	18	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414124--1414153	13	2.3	13	94	0	51	43	23	26	6	1.78
1428314--1428368	29	1.9	28	92	3	92	12	38	29	20	1.89
1428505--1428540	18	2.0	18	94	0	63	25	33	36	5	1.79
1441232--1441256	1	25.0	1	100	0	50	0	100	0	0	0.00
1452865--1452941	37	2.1	37	95	0	136	23	24	11	40	1.88
1468015--1468167	69	2.3	67	87	3	209	27	28	26	16	1.97
1468470--1468541	29	2.5	29	93	0	117	38	9	12	38	1.76
1468556--1468615	30	2.0	31	90	3	95	36	6	23	33	1.81
1468834--1468877	23	2.0	23	95	4	81	20	22	29	27	1.99
1468834--1468887	23	2.4	23	87	3	65	22	22	25	29	1.99
1476483--1476549	29	2.3	29	86	0	107	43	13	10	32	1.78
1485255--1485309	27	2.0	27	96	0	101	29	9	3	58	1.46
1486260--1486388	63	2.0	68	80	10	153	32	9	10	48	1.69
1486920--1486978	32	1.9	32	90	10	97	28	32	0	38	1.57
1490517--1490576	30	2.0	31	83	9	79	16	16	15	51	1.76
1490555--1490619	28	2.3	29	86	2	87	16	15	16	50	1.78
1492888--1493447	77	7.3	77	85	8	653	29	18	17	34	1.94
1492888--1493447	39	14.6	39	85	8	659	29	18	17	34	1.94
1493236--1493411	33	4.9	33	86	7	147	28	19	19	32	1.96
1493503--1493594	15	5.4	15	68	28	60	19	26	16	38	1.92
1493518--1493581	20	3.4	20	67	30	59	20	25	15	39	1.92
1493480--1493636	36	4.3	36	88	5	219	23	22	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494018--1494222	44	4.6	44	72	4	153	29	23	20	26	1.99
1494006--1494919	133	7.0	133	81	8	968	29	20	19	29	1.97
1502748--1502794	23	2.0	23	95	0	85	36	12	8	42	1.74
1513428--1513520	37	2.5	37	79	8	100	55	1	7	35	1.35
1513504--1513546	8	5.2	8	78	15	52	65	2	2	30	1.18
1513481--1513551	17	4.2	16	75	7	61	57	4	5	32	1.41
1514209--1514254	23	2.0	23	100	0	92	26	30	21	21	1.99
1514399--1514450	24	2.2	24	82	6	61	51	19	7	21	1.71
1514419--1514533	24	4.8	24	86	7	144	40	20	13	26	1.89
1514462--1514556	48	2.0	48	83	4	120	42	17	12	27	1.86

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