genome.fa.s9235.2.7.7.80.10.50.1000.5.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: VEPZ01009235.1 Hibiscus syriacus cultivar Beakdansim tig00112857_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1478786

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 628 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)
1126651--1126695	19	2.4	19	88	0	72	6	15	24	53	1.66
1127227--1127279	20	2.7	20	90	0	79	26	18	28	26	1.98
1127288--1127341	20	2.7	20	97	0	99	25	18	24	31	1.97
1127228--1127344	61	1.9	61	85	0	162	23	17	24	34	1.96
1127228--1127362	61	2.2	61	81	2	155	22	19	24	33	1.97
1127412--1127452	21	2.0	21	85	0	55	34	31	17	17	1.93
1135300--1135419	60	2.0	60	98	0	231	40	12	15	32	1.84
1147478--1147512	18	1.9	18	88	0	52	54	0	17	28	1.43
1150713--1150790	12	6.8	12	70	21	60	41	15	20	23	1.90
1150712--1150762	22	2.3	22	90	6	77	45	13	17	23	1.84
1150823--1150865	21	2.0	22	90	4	70	23	30	16	30	1.96
1151408--1151450	22	2.0	22	95	0	77	25	27	18	27	1.98
1151408--1151465	22	2.6	22	83	5	73	27	29	17	25	1.97
1152566--1152612	3	16.3	3	86	8	71	63	0	34	2	1.06
1155823--1155870	20	2.6	18	81	12	60	31	16	18	33	1.94
1162353--1162428	22	3.4	21	70	10	53	40	17	14	27	1.88
1162906--1162956	20	2.5	20	100	0	102	27	27	15	29	1.96
1164823--1164864	3	14.0	3	85	9	59	30	0	0	69	0.89
1168069--1168186	21	5.6	21	72	15	109	20	19	25	34	1.96
1168075--1168201	42	3.0	42	95	0	227	21	18	24	35	1.96
1168087--1168224	23	6.3	23	72	13	130	21	18	22	36	1.95
1177053--1177086	18	1.9	17	88	5	50	64	5	0	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185288--1185326	17	2.2	19	86	9	55	64	5	0	30	1.15
1193514--1193547	18	1.9	17	88	5	50	64	5	0	29	1.17
1197164--1197450	42	6.9	42	93	0	479	36	25	17	19	1.94
1197164--1197490	42	7.8	41	92	2	433	36	25	18	20	1.95
1197164--1197506	63	5.5	61	74	15	245	37	24	18	20	1.94
1197502--1197554	21	2.5	21	93	0	88	16	20	32	30	1.95
1212550--1212610	30	2.0	30	96	0	113	27	16	26	29	1.97
1216795--1216857	30	2.1	30	90	0	99	30	19	23	26	1.98
1223198--1223235	16	2.4	16	100	0	76	42	5	28	23	1.76
1229953--1229983	12	2.6	12	100	0	62	12	29	22	35	1.91
1231695--1231721	2	13.5	2	100	0	54	51	0	0	48	1.00
1234894--1234923	11	2.7	11	94	0	51	43	10	23	23	1.83
1239041--1239086	21	2.2	22	88	7	69	50	2	0	47	1.13
1245637--1245711	38	2.0	37	82	5	89	49	4	0	46	1.20
1245765--1245814	24	2.0	25	96	3	93	32	0	8	60	1.26
1247904--1247966	27	2.3	27	86	0	90	50	12	14	22	1.76
1273611--1273674	3	21.0	3	84	9	85	35	0	1	62	1.05
1274083--1274127	17	2.8	15	84	15	63	51	17	28	2	1.58
1275437--1275476	11	3.3	13	80	13	50	50	2	0	47	1.14
1277480--1277521	7	6.0	7	81	8	50	14	16	14	54	1.71
1277480--1277521	15	3.0	14	83	10	50	14	16	14	54	1.71
1280126--1280170	9	4.9	9	83	5	63	75	0	22	2	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280126--1280171	19	2.4	20	92	7	78	76	0	21	2	0.90
1280127--1280171	8	4.7	10	76	17	51	77	0	20	2	0.87
1280654--1280716	32	2.0	32	90	6	101	42	15	15	25	1.87
1282237--1282464	114	2.0	114	91	0	366	34	14	17	32	1.91
1283477--1283806	76	4.4	75	90	0	399	30	16	22	30	1.96
1283479--1283806	151	2.2	151	82	3	408	30	16	22	30	1.96
1285401--1286180	113	6.8	113	84	3	897	38	13	19	28	1.90
1285999--1286043	24	1.9	23	82	13	56	48	11	26	13	1.75
1286230--1286459	119	1.9	119	90	3	365	40	15	19	24	1.91
1286657--1286716	3	20.0	3	80	13	70	35	0	1	63	1.05
1287126--1287166	17	2.3	19	84	16	61	48	19	29	2	1.61
1288344--1288411	26	2.5	28	79	15	81	36	1	1	60	1.15
1288482--1288524	11	3.4	13	81	12	54	48	2	0	48	1.14
1289737--1289802	20	3.2	20	66	19	55	22	22	21	33	1.97
1289678--1289934	41	6.2	41	88	2	372	23	20	24	32	1.98
1289876--1289939	21	3.2	19	71	16	56	25	20	23	31	1.98
1301683--1301787	53	2.0	53	94	0	183	49	6	22	20	1.72
1306581--1308181	798	2.0	799	97	0	2988	36	23	10	29	1.89
1310009--1310035	14	1.9	14	100	0	54	59	0	11	29	1.32
1310619--1310758	36	3.9	35	87	6	192	20	22	20	37	1.94
1310619--1310763	72	2.0	71	90	4	229	19	22	19	39	1.93
1311177--1311206	15	2.0	15	93	0	51	33	20	10	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313298--1313557	129	2.0	129	99	0	511	35	19	11	33	1.88
1313760--1313812	19	2.7	20	76	5	54	45	3	0	50	1.19
1315833--1315898	34	1.9	34	96	0	123	28	22	18	30	1.97
1316457--1316501	2	22.5	2	100	0	90	51	0	0	48	1.00
1319544--1319613	21	3.3	20	74	7	59	38	12	15	32	1.86
1323097--1323146	21	2.4	21	82	0	64	38	12	14	36	1.83
1324184--1324240	20	2.8	20	72	2	60	43	3	0	52	1.18
1329361--1329814	227	2.0	227	100	0	908	38	4	19	37	1.72
1345468--1345512	14	3.0	15	84	15	58	60	0	2	37	1.09
1347058--1347109	21	2.5	21	93	0	86	25	23	26	25	2.00
1347149--1347192	20	2.3	19	84	7	54	31	20	22	25	1.98
1348918--1348970	21	2.4	22	81	6	63	58	0	7	33	1.26
1350047--1350098	23	2.4	22	84	12	63	40	7	0	51	1.30
1350147--1350178	16	2.0	16	93	0	55	18	15	25	40	1.90
1351131--1351157	2	13.5	2	100	0	54	48	0	0	51	1.00
1353270--1353325	2	28.0	2	100	0	112	50	0	0	50	1.00
1353455--1353513	19	3.5	19	65	29	60	52	1	10	35	1.45
1353455--1353516	31	2.0	31	100	0	124	51	3	9	35	1.51
1355229--1355328	31	3.2	31	71	5	85	46	14	4	36	1.63
1358242--1358282	19	2.2	19	86	4	57	36	2	2	58	1.24
1359187--1359232	15	3.3	14	79	11	51	45	0	8	45	1.34
1361559--1361599	19	2.2	19	86	4	57	36	2	2	58	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362504--1362549	15	3.3	14	79	11	51	45	0	8	45	1.34
1368529--1368597	3	23.0	3	81	0	75	23	33	5	37	1.79
1368533--1368614	12	6.8	12	88	0	92	20	32	7	39	1.80
1368533--1368614	6	13.7	6	82	0	74	20	32	7	39	1.80
1369421--1369464	2	22.0	2	100	0	88	50	0	0	50	1.00
1370244--1370878	200	3.2	200	94	1	1121	29	19	15	35	1.92
1372812--1372877	33	2.0	33	90	0	105	22	48	0	28	1.51
1372911--1372975	21	3.1	21	93	0	103	16	30	10	41	1.83
1375385--1375431	20	2.3	20	89	10	78	17	17	10	55	1.69
1375171--1375644	181	2.6	181	89	1	689	27	16	13	42	1.86
1376861--1376996	24	5.7	23	70	15	80	43	2	9	44	1.52
1376867--1376945	22	3.5	22	72	13	79	43	2	11	43	1.54
1376869--1376958	46	2.0	46	100	0	180	45	3	8	42	1.52
1376857--1376956	22	4.4	22	70	12	76	45	3	10	42	1.53
1376885--1377004	26	5.0	25	73	12	108	45	4	6	43	1.49
1379096--1379212	60	2.0	60	87	3	173	45	4	18	31	1.69
1380411--1380448	18	2.1	18	95	0	67	44	7	0	47	1.32
1382383--1382427	13	3.4	14	78	9	58	51	2	0	46	1.13
1383196--1383345	59	2.5	60	79	10	153	34	13	17	34	1.89
1385216--1385255	19	2.1	19	100	0	80	25	22	25	27	2.00
1394916--1394950	17	2.1	17	100	0	70	48	17	5	28	1.69
1396049--1396106	24	2.5	23	76	15	57	55	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398671--1398789	21	5.8	21	74	4	125	21	18	24	35	1.96
1398696--1398809	20	5.6	20	75	4	120	16	21	23	38	1.93
1398674--1398809	41	3.3	41	96	0	254	18	19	24	37	1.94
1398801--1398872	22	3.4	21	73	11	76	16	19	26	37	1.93
1398822--1398887	19	3.3	19	72	12	69	18	19	21	40	1.91
1398740--1398894	41	3.8	41	88	6	176	16	19	23	40	1.91
1398672--1398878	82	2.5	81	84	8	242	18	19	23	37	1.94
1398972--1399003	6	5.5	6	96	3	57	31	53	15	0	1.43
1399635--1399707	20	3.6	20	70	3	65	41	26	19	13	1.88
1399607--1399732	41	3.0	41	88	3	173	38	23	19	19	1.93

Tables:   1   2   3   4   5   6