genome.fa.s7790.2.7.7.80.10.50.1000.5.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: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2956777

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1250 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)
1216150--1216188	20	2.0	20	85	10	53	25	0	2	71	0.98
1217825--1217886	30	2.1	30	81	6	72	20	11	8	59	1.57
1221026--1221087	32	1.9	32	93	0	106	43	16	17	22	1.87
1223428--1223572	75	1.9	75	87	0	209	31	18	18	31	1.95
1224836--1224876	19	2.1	19	86	4	64	34	9	14	41	1.79
1225547--1225763	45	4.8	45	98	0	407	23	26	19	30	1.98
1225739--1225790	24	2.2	24	96	0	95	25	25	15	34	1.95
1225694--1225831	68	2.0	69	95	1	251	23	23	18	33	1.97
1225967--1226029	3	20.3	3	74	6	54	38	1	0	60	1.07
1226554--1226614	20	3.1	20	90	2	97	57	19	18	4	1.58
1227524--1227587	17	3.4	17	70	25	56	42	3	0	54	1.16
1227509--1227602	21	4.6	20	79	12	102	39	2	0	58	1.10
1227516--1227603	41	2.1	41	97	2	167	39	2	0	57	1.11
1227578--1227636	29	2.0	31	86	6	86	32	0	1	66	1.02
1230334--1230416	38	2.2	37	80	6	96	37	7	9	45	1.65
1230878--1231136	139	1.9	138	89	0	401	36	8	8	47	1.63
1231212--1231247	19	1.9	19	88	5	56	41	2	8	47	1.48
1231974--1232011	18	2.3	17	83	16	53	36	0	21	42	1.53
1237470--1237714	118	2.1	115	84	5	321	40	22	13	24	1.89
1239020--1239064	20	2.3	20	84	3	56	40	24	0	35	1.56
1239601--1239634	16	2.1	16	88	0	50	38	11	11	38	1.79
1239921--1240003	25	3.3	25	98	0	157	31	20	0	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254986--1255049	33	1.9	34	84	9	87	48	6	17	28	1.71
1256117--1256166	24	2.1	24	100	0	100	48	14	20	18	1.82
1264143--1264186	17	2.5	17	85	3	52	25	2	25	47	1.63
1267880--1267940	26	2.4	25	73	13	61	31	3	0	65	1.09
1269986--1270024	19	2.1	19	90	0	60	12	33	15	38	1.85
1269986--1270030	19	2.5	18	82	7	56	17	28	15	37	1.91
1271006--1271067	21	2.9	20	75	25	56	48	1	0	50	1.10
1271191--1271260	27	2.6	27	82	10	81	57	1	1	40	1.17
1279490--1279627	64	2.2	63	82	10	156	29	18	21	29	1.97
1286623--1286648	6	4.3	6	100	0	52	0	50	15	34	1.45
1288179--1288230	25	2.0	27	82	10	65	23	0	9	67	1.20
1288273--1288345	28	2.7	26	76	21	78	19	6	1	72	1.14
1288301--1288390	32	2.7	33	84	5	119	17	8	2	71	1.23
1288388--1288437	21	2.3	23	89	6	77	12	12	0	76	1.04
1288264--1288450	59	3.2	55	73	11	144	18	9	1	71	1.19
1293892--1294207	85	3.7	85	84	0	375	37	18	15	28	1.91
1294134--1294277	70	2.1	70	90	0	225	40	21	13	24	1.89
1294049--1294358	155	2.0	155	83	1	397	40	19	14	26	1.89
1294204--1294382	85	2.1	85	87	2	252	37	20	15	26	1.92
1294936--1294960	5	5.0	5	100	0	50	20	0	0	80	0.72
1295147--1295201	26	2.0	28	89	6	87	50	0	5	43	1.25
1295096--1295298	69	2.9	68	78	12	162	45	2	6	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294962--1295302	36	9.5	35	74	14	184	44	2	7	44	1.47
1295301--1295354	3	18.0	3	86	7	74	27	0	1	70	0.98
1296850--1296879	15	2.0	15	100	0	60	53	6	6	33	1.53
1299389--1299428	20	2.0	20	90	0	62	42	5	10	42	1.60
1299429--1299567	37	3.8	35	79	14	149	42	5	10	41	1.61
1299408--1299575	74	2.3	74	90	7	261	44	5	10	39	1.62
1299408--1299578	38	4.6	38	78	11	192	43	5	10	40	1.62
1299408--1299578	75	2.3	72	91	7	263	43	5	10	40	1.62
1299540--1299596	24	2.4	24	91	2	89	45	5	7	42	1.53
1299503--1299624	62	2.0	61	82	7	149	42	4	10	41	1.61
1299688--1299759	23	3.0	24	85	6	83	19	4	0	76	0.95
1300879--1300911	16	2.0	17	94	5	59	18	6	0	75	1.00
1315481--1315530	6	8.3	6	81	14	50	16	6	0	78	0.95
1315482--1315530	19	2.7	18	87	12	73	16	6	0	77	0.96
1315632--1315661	15	2.1	15	93	6	53	13	10	0	76	1.01
1321262--1322040	200	3.9	200	82	2	812	33	17	19	28	1.95
1321262--1322040	201	3.9	199	80	4	778	33	17	19	28	1.95
1322754--1322793	20	2.0	20	95	0	71	42	5	12	40	1.64
1322853--1322880	14	2.0	14	100	0	56	35	7	14	42	1.73
1322773--1322902	38	3.5	37	79	9	140	45	6	8	39	1.62
1322867--1322930	24	2.7	22	86	13	92	40	4	12	42	1.64
1322830--1322964	62	2.2	62	93	1	227	41	5	11	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322892--1323065	38	4.6	39	80	11	209	42	4	9	43	1.56
1322890--1323065	75	2.3	75	82	7	232	42	3	10	43	1.57
1323137--1323187	19	2.7	19	85	8	61	25	1	0	72	0.95
1327326--1327373	20	2.4	20	89	0	78	33	37	10	18	1.85
1332620--1332651	16	1.9	17	93	6	57	43	0	18	37	1.51
1341441--1341486	20	2.2	20	84	7	56	78	0	17	4	0.91
1341838--1341878	21	1.9	22	85	14	59	29	9	4	56	1.53
1342370--1342702	122	2.7	123	90	4	521	41	15	18	24	1.89
1342881--1342985	39	2.7	39	93	1	174	47	9	25	17	1.77
1342885--1342985	20	5.2	19	64	22	57	48	9	24	16	1.77
1342928--1342993	20	3.3	20	70	16	64	45	12	21	21	1.84
1353705--1353812	37	2.9	36	87	5	153	39	10	11	38	1.75
1354512--1354606	10	9.7	9	70	23	50	17	9	1	71	1.18
1354548--1354604	23	2.4	24	80	11	64	15	8	1	73	1.16
1357641--1357686	24	1.9	24	90	0	74	76	4	13	6	1.14
1359231--1359333	43	2.4	43	86	0	143	28	30	18	23	1.98
1359495--1359735	124	1.9	124	83	1	304	31	24	17	25	1.97
1359803--1359961	36	4.4	35	89	4	194	28	19	11	40	1.87
1359821--1359973	36	4.2	36	91	0	234	30	19	11	38	1.88
1359886--1360075	102	1.9	103	86	4	278	26	20	12	40	1.88
1359996--1360110	37	3.1	36	80	6	124	27	20	13	38	1.90
1360558--1360596	14	2.8	14	84	0	51	35	28	12	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365452--1365526	37	2.0	37	94	0	132	40	12	14	33	1.83
1366002--1366071	21	3.3	21	68	18	56	22	14	0	62	1.31
1366198--1366274	10	8.0	9	76	21	52	22	6	1	70	1.18
1366416--1366472	26	2.2	25	84	9	71	14	15	3	66	1.38
1368135--1368232	3	32.7	3	100	0	196	66	0	0	33	0.92
1369459--1369490	2	16.0	2	100	0	64	50	0	0	50	1.00
1375673--1375826	81	1.9	81	86	2	220	14	31	22	31	1.94
1375939--1376183	55	4.5	55	82	2	312	27	25	20	26	1.99
1375949--1376041	27	3.4	27	68	19	84	24	27	20	26	1.99
1375939--1376183	110	2.2	111	88	2	368	27	25	20	26	1.99
1377449--1377489	16	2.6	16	88	0	55	48	2	0	48	1.14
1381477--1381526	20	2.5	20	100	0	100	30	16	22	32	1.95
1382804--1382845	22	1.9	22	85	0	57	14	50	14	21	1.78
1383743--1383826	28	2.9	28	73	19	82	33	8	2	55	1.42
1383738--1383793	15	3.7	15	72	9	51	28	7	1	62	1.32
1386437--1386518	43	1.9	42	87	7	121	35	6	20	37	1.78
1386599--1386634	7	5.1	7	87	12	56	13	16	11	58	1.63
1386997--1387080	42	2.0	42	88	0	123	50	13	17	19	1.78
1392774--1392906	27	4.7	28	80	6	142	41	21	5	32	1.75
1392765--1392873	30	3.8	29	80	5	116	40	19	4	35	1.72
1392765--1392873	58	1.9	57	88	5	166	40	19	4	35	1.72
1399284--1399701	208	2.0	208	100	0	836	39	17	14	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400216--1400314	29	3.4	30	81	4	85	44	21	3	31	1.67
1400229--1400338	29	3.8	28	83	7	105	43	19	3	33	1.68
1400259--1400344	29	3.0	29	91	0	127	40	24	3	31	1.72
1401370--1401559	54	3.6	51	79	8	202	37	12	20	30	1.88
1402358--1402547	83	2.3	83	92	0	317	37	17	18	26	1.93
1404200--1404231	16	2.0	16	100	0	64	56	6	6	31	1.49
1405292--1405317	13	2.0	13	100	0	52	38	15	23	23	1.92
1407304--1407345	21	2.0	22	90	4	68	21	26	23	28	1.99
1418489--1418560	36	2.0	36	86	0	99	26	18	26	29	1.98
1420816--1420853	18	2.2	18	86	13	53	81	0	2	15	0.80

Tables:   1   2   3   4   5   6   7   8   9   10   11