genome.fa.s8745.2.7.7.80.10.50.1000.6.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: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1915556

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 927 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)
1254548--1254633	39	2.2	39	93	0	145	48	18	13	18	1.80
1255056--1255128	23	3.2	23	88	0	101	34	4	21	39	1.73
1255486--1255558	23	3.2	23	88	0	101	34	4	21	39	1.73
1255913--1255975	23	2.7	23	87	0	90	38	4	17	39	1.71
1255913--1255985	23	3.2	22	80	7	74	35	4	19	41	1.70
1254853--1256334	430	3.5	429	96	0	2745	41	7	11	38	1.70
1256995--1257077	28	2.8	31	78	12	102	49	6	4	39	1.49
1259007--1259395	185	2.1	183	90	3	604	44	8	3	42	1.52
1260639--1260663	2	12.5	2	100	0	50	52	0	0	48	1.00
1262242--1262296	22	2.5	22	93	0	101	40	14	10	34	1.81
1263794--1263867	35	2.1	34	80	9	78	32	22	13	31	1.93
1264932--1265113	83	2.2	83	90	3	287	36	21	13	28	1.91
1275473--1275654	83	2.2	83	90	3	287	28	13	21	36	1.91
1278291--1278345	22	2.5	22	93	0	101	34	10	14	40	1.81
1279042--1279109	29	2.3	29	87	5	91	22	14	22	41	1.90
1279054--1279120	29	2.3	29	92	0	107	22	16	20	40	1.91
1279083--1279837	76	9.9	76	97	0	1422	21	21	21	34	1.97
1279991--1280060	3	23.3	3	79	0	77	41	0	1	57	1.08
1280355--1280398	21	2.0	22	86	8	63	27	29	25	18	1.98
1281093--1281122	2	15.0	2	100	0	60	50	0	0	50	1.00
1281377--1281423	20	2.3	21	75	10	53	25	4	8	61	1.43
1283471--1283530	29	2.1	29	96	0	111	15	25	41	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283517--1283638	60	2.0	60	100	0	244	13	21	42	22	1.87
1283671--1283754	29	2.9	28	91	3	123	23	29	29	16	1.96
1283821--1283856	11	3.2	11	84	7	54	22	22	19	36	1.95
1284413--1284462	21	2.4	22	93	6	86	30	0	16	54	1.42
1284641--1284711	30	2.3	31	77	15	76	40	1	8	49	1.42
1287023--1287070	14	3.6	14	81	16	66	47	16	0	35	1.47
1287022--1287070	25	2.0	25	95	0	89	46	16	0	36	1.47
1287022--1287080	25	2.6	22	86	10	75	49	13	0	37	1.43
1287022--1287091	21	3.1	22	80	12	63	50	11	0	38	1.39
1287091--1287117	10	2.7	10	100	0	54	40	18	0	40	1.51
1287038--1287226	60	3.2	60	90	5	312	46	11	0	41	1.44
1287160--1287877	49	13.3	49	77	17	657	46	11	0	42	1.41
1287098--1287997	109	8.2	108	84	8	1047	46	11	0	41	1.43
1287215--1287295	28	3.1	28	65	23	77	48	9	0	41	1.36
1287265--1287562	60	5.0	60	75	16	262	45	12	0	41	1.44
1287477--1287513	10	3.7	10	100	0	74	40	18	0	40	1.51
1287601--1287688	24	3.6	24	68	8	70	46	12	0	40	1.42
1287654--1287779	60	2.1	60	92	1	209	46	11	0	42	1.39
1287861--1288001	21	7.0	21	64	20	68	45	14	0	40	1.45
1287812--1288001	60	3.2	60	96	0	346	45	13	0	40	1.44
1291071--1291124	28	1.9	28	96	0	99	57	12	0	29	1.36
1291067--1291131	28	2.3	28	84	10	96	55	10	0	33	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291101--1291149	21	2.3	21	85	3	71	53	16	0	30	1.43
1291631--1291825	98	2.0	98	95	0	354	30	17	30	21	1.97
1291653--1291842	50	3.8	49	69	12	147	31	18	31	18	1.95
1291851--1291934	29	2.9	29	85	0	114	14	23	39	22	1.91
1291971--1292003	15	2.2	15	100	0	66	24	48	12	15	1.78
1292231--1292308	29	2.7	29	86	4	95	15	29	35	19	1.92
1294765--1294805	22	1.9	22	90	5	66	60	12	0	26	1.31
1294894--1294983	30	3.0	30	83	8	94	61	13	11	14	1.58
1297239--1297318	29	2.7	30	72	16	76	40	5	20	35	1.74
1302062--1302112	21	2.5	21	96	3	95	3	9	41	45	1.56
1306282--1306348	30	2.2	31	86	2	91	40	13	16	29	1.87
1310452--1311015	216	2.6	216	96	1	1021	50	8	10	30	1.66
1311181--1311318	38	3.7	38	84	12	162	42	8	5	43	1.59
1311323--1311357	18	1.9	17	100	0	52	40	11	8	40	1.72
1311336--1311455	33	3.9	32	73	17	119	41	8	6	43	1.61
1311387--1311516	2	61.0	2	69	19	68	42	6	4	46	1.49
1311392--1311502	22	4.8	22	72	18	75	42	6	4	46	1.49
1311197--1311451	20	13.3	19	71	21	153	41	9	6	42	1.62
1311395--1311513	51	2.3	50	85	8	159	41	6	5	47	1.52
1311448--1311511	9	6.7	9	71	25	51	43	6	1	48	1.37
1311446--1311516	20	3.5	20	83	9	83	43	5	2	47	1.41
1311470--1311538	34	2.0	36	85	5	97	46	7	2	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311577--1311707	18	7.5	18	69	13	103	45	6	6	41	1.56
1311553--1311768	33	6.5	33	82	10	253	43	6	6	43	1.56
1311553--1311768	104	2.2	103	85	9	288	43	6	6	43	1.56
1311798--1311834	17	2.1	18	95	5	67	48	5	5	40	1.49
1315080--1315125	19	2.4	19	85	10	58	58	0	6	34	1.24
1315133--1315166	14	2.4	14	90	9	52	55	2	2	38	1.30
1315074--1315228	71	2.2	69	81	12	181	55	2	5	36	1.36
1315200--1315251	26	2.0	26	82	14	63	48	3	1	46	1.31
1315330--1315369	17	2.4	16	87	4	53	35	17	30	17	1.93
1329661--1329710	24	2.1	25	85	7	68	46	8	2	44	1.44
1330238--1330262	7	3.6	7	100	0	50	28	0	12	60	1.32
1330231--1330263	14	2.3	15	85	15	52	24	0	18	57	1.40
1330531--1330561	2	15.5	2	100	0	62	0	48	0	51	1.00
1335017--1335153	60	2.3	59	78	10	136	32	10	17	39	1.83
1339598--1339656	28	2.1	28	87	9	84	42	5	5	47	1.47
1342105--1342285	62	2.9	62	78	6	213	37	16	13	33	1.88
1343509--1343554	2	23.0	2	100	0	92	50	0	50	0	1.00
1358693--1358758	34	1.9	34	87	6	98	46	0	4	48	1.22
1361140--1361191	27	1.9	27	88	0	77	23	3	32	40	1.72
1361845--1361969	60	2.1	60	84	3	162	36	10	15	38	1.81
1364248--1364301	2	27.0	2	100	0	108	50	0	0	50	1.00
1376378--1376430	25	2.1	25	82	6	63	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376995--1377058	31	2.1	31	82	2	76	35	12	7	43	1.71
1377851--1377879	2	14.5	2	100	0	58	51	0	0	48	1.00
1378274--1379035	393	2.0	387	85	5	1025	32	15	18	33	1.92
1383817--1383965	56	2.6	58	80	8	171	34	16	4	43	1.69
1384299--1384339	16	2.6	16	88	0	55	65	0	0	34	0.93
1386089--1386240	80	1.9	79	86	1	214	34	12	8	44	1.73
1393325--1393363	20	2.0	20	84	0	51	41	20	5	33	1.74
1398150--1398223	32	2.3	33	84	11	91	50	2	1	45	1.24
1398358--1398399	21	2.0	21	90	4	66	42	0	2	54	1.13
1398363--1398483	42	2.8	41	84	9	145	51	1	0	46	1.16
1398363--1398488	44	3.0	41	84	10	148	51	1	0	46	1.16
1402446--1402470	3	8.3	3	100	0	50	68	0	32	0	0.90
1403132--1403164	9	3.7	9	84	15	50	45	0	0	54	0.99
1403204--1403238	18	2.0	17	88	5	52	54	0	2	42	1.15
1406127--1406165	3	13.0	3	94	0	69	33	2	0	64	1.08
1407536--1407581	24	1.9	24	95	0	83	15	19	10	54	1.70
1410644--1410767	60	2.1	60	81	3	142	38	14	13	33	1.86
1413300--1413369	3	23.3	3	100	0	140	32	0	0	67	0.91
1414003--1414294	122	2.4	121	90	0	467	33	15	10	41	1.80
1414051--1414238	60	3.1	60	63	17	145	37	14	9	39	1.78
1418560--1418736	81	2.1	82	84	7	225	32	16	17	32	1.93
1419989--1420018	15	2.0	15	93	0	51	16	26	43	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442151--1442194	19	2.4	19	81	7	56	54	2	0	43	1.12
1442138--1442225	17	5.1	18	70	21	55	59	2	0	38	1.10
1447887--1447933	4	12.0	4	82	13	62	27	0	0	72	0.85
1455376--1455421	18	2.6	18	86	3	58	60	0	4	34	1.16
1456260--1456323	31	2.1	31	100	0	128	51	18	3	26	1.61
1468467--1468761	111	2.7	111	86	2	382	22	31	11	34	1.89
1473655--1473690	6	6.5	6	96	3	51	27	52	19	0	1.46
1474298--1474484	21	8.8	21	71	16	134	34	25	19	20	1.96
1474302--1474454	42	3.6	42	95	0	270	35	26	18	20	1.95
1474432--1474478	24	2.0	24	95	0	85	29	27	19	23	1.98

Tables:   1   2   3   4   5   6   7   8