genome.fa.s8645.2.7.7.80.10.50.1000.7.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  7  of  22  ( 2605 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)
1186871--1187133	95	2.7	95	87	3	357	31	17	17	33	1.93
1190915--1190996	38	2.2	38	80	8	87	70	6	9	13	1.32
1191142--1191206	27	2.4	27	85	9	98	73	4	4	16	1.17
1191146--1191208	28	2.2	28	86	5	92	74	4	4	15	1.16
1191296--1191326	2	15.5	2	93	0	53	51	3	0	45	1.17
1191392--1191443	23	2.3	22	87	9	70	75	0	1	23	0.91
1192762--1192788	14	1.9	14	100	0	54	7	7	18	66	1.40
1196191--1196268	20	3.9	20	88	3	104	20	24	24	30	1.98
1196192--1196291	10	10.3	9	72	14	65	20	27	25	28	1.99
1199168--1199205	18	2.1	19	85	5	51	23	31	15	28	1.96
1212582--1212616	18	2.0	17	88	5	52	31	22	25	20	1.98
1221252--1221286	18	2.0	17	88	5	52	31	22	25	20	1.98
1223069--1223143	26	2.8	26	77	4	78	34	16	12	37	1.85
1223096--1223143	13	3.7	13	91	0	69	33	18	12	35	1.89
1223122--1223372	85	3.0	85	80	3	274	31	19	16	33	1.94
1224854--1224895	15	2.9	15	89	3	59	83	9	0	7	0.81
1231508--1231653	58	2.5	59	94	1	249	31	11	18	38	1.87
1232340--1234165	134	13.5	133	83	4	1991	32	21	15	30	1.95
1233934--1233964	15	2.1	15	100	0	62	32	25	19	22	1.97
1233803--1234075	149	1.8	149	85	3	388	33	23	14	29	1.94
1235236--1235283	20	2.4	20	96	0	87	12	22	52	12	1.73
1243881--1243952	20	3.7	20	88	5	85	31	25	12	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244128--1244166	16	2.5	15	84	8	51	28	5	0	66	1.12
1247239--1247274	18	2.0	18	94	0	63	58	25	0	16	1.38
1247486--1247559	29	2.6	29	97	0	139	28	17	25	28	1.98
1247543--1247608	20	3.3	19	79	8	69	45	19	16	18	1.86
1249097--1249209	21	5.4	21	80	0	118	23	20	34	21	1.97
1249097--1249219	42	2.9	41	85	4	165	24	19	34	21	1.96
1249509--1249630	63	1.9	63	81	6	149	33	33	11	21	1.89
1249548--1249668	63	1.9	63	81	3	145	32	36	11	19	1.88
1249496--1249671	21	8.4	21	67	5	77	34	33	12	19	1.90
1249788--1249884	42	2.3	42	83	0	122	17	18	34	29	1.94
1251641--1251742	22	4.6	22	91	0	159	19	18	44	17	1.87
1260831--1260872	2	21.0	2	100	0	84	50	0	0	50	1.00
1266703--1266738	2	18.0	2	100	0	72	50	0	0	50	1.00
1267529--1267580	26	2.0	27	88	11	81	61	1	5	30	1.30
1274521--1274549	14	2.0	15	93	6	51	55	6	10	27	1.59
1276368--1276429	20	3.3	20	67	28	64	14	32	30	22	1.94
1276361--1276429	35	2.0	35	100	0	138	17	30	31	20	1.95
1276995--1277168	31	5.6	31	95	0	303	18	20	22	37	1.94
1285997--1286140	55	2.6	56	86	8	199	27	17	20	34	1.95
1286862--1286918	21	2.7	21	86	5	80	17	19	29	33	1.95
1286904--1286969	23	2.9	23	93	0	114	19	25	25	28	1.99
1291816--1291956	55	2.6	55	91	0	228	29	19	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292677--1292732	21	2.7	21	82	0	76	17	21	26	33	1.96
1298189--1298243	26	2.1	26	83	12	69	40	18	23	18	1.91
1299005--1299090	32	2.6	32	81	9	84	36	16	8	39	1.78
1299117--1299183	36	1.9	36	90	6	111	37	10	16	35	1.83
1311430--1311468	16	2.4	17	87	12	55	38	5	0	56	1.22
1311515--1311552	16	2.2	18	86	13	53	47	10	0	42	1.38
1314463--1314507	15	3.1	15	80	6	56	24	31	20	24	1.98
1315833--1315879	3	15.7	3	100	0	94	65	0	0	34	0.93
1316134--1316718	117	5.0	117	86	1	764	27	23	13	35	1.92
1316176--1316718	231	2.3	232	87	1	775	27	23	13	35	1.92
1317114--1317197	37	2.3	36	83	6	98	50	16	9	23	1.75
1317956--1318451	235	2.1	238	84	4	648	36	16	15	31	1.90
1318585--1318740	59	2.7	58	81	7	158	43	16	7	32	1.76
1320038--1320101	28	2.3	28	78	5	76	21	1	35	40	1.63
1320760--1320822	10	6.5	10	85	1	58	1	38	0	60	1.07
1320772--1320806	2	17.5	2	87	0	52	0	42	0	57	0.99
1320767--1320832	22	2.8	22	80	11	69	1	36	0	62	1.05
1321113--1321140	2	14.0	2	100	0	56	50	0	0	50	1.00
1326112--1326147	18	1.9	19	88	5	56	19	0	36	44	1.51
1326158--1326215	3	20.0	3	85	7	84	63	0	1	34	1.04
1326545--1326604	20	3.0	20	72	13	61	33	1	3	61	1.22
1326685--1326759	26	2.9	26	94	2	125	21	40	8	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333729--1333777	23	2.1	23	85	7	64	59	10	2	28	1.41
1339340--1339388	23	2.1	23	85	7	64	59	12	2	26	1.44
1343264--1343303	18	2.3	16	87	12	53	0	17	15	67	1.23
1344026--1344068	18	2.3	19	84	4	61	67	0	4	27	1.10
1344123--1344180	22	2.5	22	83	5	62	56	0	5	37	1.21
1344143--1344176	15	2.4	14	90	5	50	55	0	0	44	0.99
1344143--1344176	7	4.7	7	89	7	50	55	0	0	44	0.99
1347800--1347836	6	6.2	6	100	0	74	0	16	48	35	1.46
1347945--1348015	21	3.4	21	67	18	67	35	26	19	18	1.95
1347939--1348018	41	2.0	41	94	0	142	36	25	21	17	1.95
1347963--1348238	62	4.3	62	79	12	306	35	25	19	19	1.95
1347986--1348128	71	2.0	71	100	0	286	35	26	18	19	1.95
1348099--1348168	20	3.5	20	70	18	72	40	24	22	12	1.89
1348096--1348189	41	2.3	41	100	0	188	38	25	21	14	1.92
1348119--1348210	21	4.4	21	78	13	118	35	27	20	16	1.94
1348075--1348242	21	8.1	21	73	12	82	35	26	19	18	1.95
1349031--1349333	45	6.7	45	83	3	295	27	22	11	38	1.89
1349795--1349974	95	1.9	95	87	2	263	28	22	13	34	1.93
1351334--1351380	20	2.3	22	78	14	55	21	25	2	51	1.59
1355407--1355448	21	2.0	22	85	4	59	40	19	2	38	1.64
1356091--1356391	45	6.7	46	82	4	256	28	21	11	38	1.89
1356095--1356308	91	2.4	90	79	7	236	29	20	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356095--1356391	90	3.3	90	79	7	291	28	21	12	37	1.89
1356847--1357287	209	2.1	209	95	0	792	28	22	15	33	1.95
1359409--1359468	23	2.6	23	94	0	111	8	61	1	28	1.34
1370492--1370571	39	2.1	38	85	2	106	50	12	11	26	1.74
1372128--1372286	28	5.6	28	89	2	228	38	20	5	35	1.77
1372128--1372286	85	1.9	85	90	0	255	38	20	5	35	1.77
1372128--1372288	57	2.8	57	88	3	236	37	21	5	35	1.77
1372289--1372328	17	2.4	17	91	8	64	10	20	52	17	1.72
1372309--1372340	12	2.7	12	95	0	55	12	21	46	18	1.82
1376585--1376623	20	2.0	19	85	5	51	12	30	10	46	1.75
1379683--1379734	25	2.1	25	96	3	97	50	11	7	30	1.67
1384420--1384475	3	18.0	3	82	14	69	64	3	0	32	1.11
1386699--1386735	18	2.1	18	100	0	74	27	10	32	29	1.90
1392637--1392664	2	14.0	2	100	0	56	50	0	0	50	1.00
1392936--1392971	3	12.0	3	100	0	72	33	0	0	66	0.92
1393833--1394051	108	2.0	107	86	7	302	20	16	16	47	1.83
1399116--1399461	6	58.3	6	93	4	578	34	1	15	48	1.53
1408424--1408776	43	8.2	42	81	3	350	32	20	21	24	1.97
1408533--1408772	128	1.9	129	85	4	333	33	20	21	24	1.97
1409423--1409583	80	2.0	80	100	0	322	42	8	13	35	1.75
1412681--1413039	41	8.6	41	80	4	337	33	18	18	28	1.95
1412770--1413003	125	1.9	123	89	1	360	33	18	18	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412681--1412999	166	1.9	166	89	0	494	33	18	19	28	1.95
1413928--1414412	134	3.6	131	78	5	463	33	22	15	29	1.94
1414537--1414576	3	13.7	3	89	5	64	35	0	2	62	1.09
1416674--1417041	131	2.8	130	83	1	459	31	10	16	41	1.82
1418513--1418583	29	2.5	28	80	10	83	78	0	14	7	0.94
1418529--1418562	13	2.7	13	90	4	52	76	0	14	8	1.01
1418517--1418587	15	5.2	13	69	17	54	80	0	12	7	0.90
1418510--1418588	10	7.3	10	75	18	61	78	0	15	6	0.94
1418559--1418612	22	2.5	22	84	6	65	75	1	18	3	1.03
1419892--1420325	132	3.3	131	81	3	460	32	22	15	29	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22