genome.fa.s8554.2.7.7.80.10.50.1000.6.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

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

This is table  6  of  10  ( 1197 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)
1241433--1241478	17	2.7	17	100	0	92	6	13	4	76	1.14
1244414--1245872	84	17.6	83	78	4	1250	31	24	19	25	1.98
1244448--1245828	249	5.6	248	86	2	1725	30	24	19	25	1.98
1244414--1245872	165	8.8	163	78	4	1248	31	24	19	25	1.98
1246217--1246267	18	2.9	16	83	13	57	25	0	1	72	0.95
1246215--1246266	13	4.0	12	79	16	59	26	0	1	71	0.97
1246218--1246266	25	2.0	25	84	15	66	26	0	2	71	0.97
1246308--1246377	33	2.1	33	91	0	113	42	18	10	28	1.82
1246725--1246751	2	13.5	2	100	0	54	48	0	0	51	1.00
1247266--1247688	39	11.5	37	78	12	390	43	3	6	46	1.47
1247266--1247688	75	5.7	73	81	9	402	43	3	6	46	1.47
1247299--1247592	76	3.9	74	83	8	194	43	3	6	46	1.46
1248821--1248880	24	2.3	27	78	21	74	25	6	1	66	1.25
1248830--1248880	24	2.1	25	89	10	79	27	5	1	64	1.27
1253713--1254320	84	7.4	84	82	5	652	30	24	20	25	1.99
1254091--1254559	235	2.0	232	80	5	532	29	23	20	26	1.99
1254326--1254559	84	2.8	82	75	6	249	29	24	20	25	1.99
1254326--1254599	84	3.3	81	72	8	239	28	25	20	26	1.99
1255235--1255466	36	6.4	35	88	6	313	44	4	6	43	1.50
1255414--1255515	49	2.1	47	85	5	141	50	2	1	45	1.28
1255460--1255554	40	2.4	42	79	13	110	48	4	3	44	1.38
1255464--1255598	37	3.7	35	75	11	110	44	4	4	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255607--1255657	16	2.9	16	81	18	57	21	3	0	74	0.98
1256894--1256931	8	4.6	8	87	6	58	18	0	0	81	0.69
1263246--1263294	19	2.7	17	84	9	53	26	20	28	24	1.99
1263246--1263425	65	2.8	65	80	9	208	28	18	23	28	1.98
1263266--1263473	65	3.2	64	77	11	201	26	18	24	30	1.98
1264461--1264504	21	2.1	21	82	0	52	31	15	43	9	1.79
1271407--1271490	21	4.1	20	76	11	71	21	35	27	15	1.94
1271451--1271493	19	2.3	19	87	0	59	20	34	32	11	1.89
1278571--1278602	16	2.0	16	100	0	64	25	18	12	43	1.85
1286682--1286889	65	3.2	65	79	9	203	26	18	24	30	1.98
1287231--1287278	21	2.2	23	85	7	64	33	12	0	54	1.38
1287860--1289997	706	3.0	707	96	0	4010	35	9	17	37	1.82
1293043--1293101	21	2.9	21	82	5	68	64	0	0	35	0.94
1293140--1293190	20	2.6	20	76	11	61	43	5	5	45	1.52
1296710--1296795	4	21.5	4	97	0	136	0	54	0	45	0.99
1305433--1305491	24	2.5	24	84	13	70	52	1	1	44	1.21
1306383--1306410	3	9.3	3	100	0	56	0	35	0	64	0.94
1308381--1308421	14	2.9	14	88	3	55	70	0	4	24	1.06
1315276--1315309	14	2.4	14	90	0	50	32	17	29	20	1.96
1323132--1323177	18	2.6	18	85	0	56	45	15	6	32	1.71
1323233--1323285	17	3.1	17	75	5	54	45	15	9	30	1.77
1326778--1326823	18	2.6	18	92	0	74	47	13	6	32	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326814--1326872	17	3.5	17	66	13	50	49	8	13	28	1.71
1352066--1352108	17	2.6	16	81	7	50	11	11	0	76	1.02
1363587--1363664	31	2.5	31	95	2	140	41	8	11	38	1.73
1374157--1374228	17	4.2	16	79	13	72	40	12	9	37	1.76
1376712--1376745	15	2.3	15	89	0	50	52	0	29	17	1.45
1377845--1377916	17	4.2	16	81	12	81	38	13	9	37	1.78
1381890--1382058	40	4.1	39	68	11	81	18	14	28	38	1.90
1382389--1382479	36	2.5	35	73	7	83	38	12	16	32	1.86
1392718--1392776	20	2.8	21	79	10	66	18	23	35	22	1.96
1392717--1392776	23	2.7	23	77	10	72	18	23	36	21	1.95
1406306--1406344	19	2.1	19	95	0	69	20	38	15	25	1.92
1406243--1406448	65	3.2	63	82	7	195	29	25	17	27	1.97
1406292--1406454	65	2.5	65	83	1	211	30	26	15	27	1.96
1413909--1413948	21	1.9	21	84	0	53	7	35	12	45	1.70
1415014--1415052	19	2.1	19	95	0	69	20	38	15	25	1.92
1415035--1415140	45	2.3	45	85	4	142	30	24	16	29	1.96
1422269--1422308	21	2.0	20	85	9	55	27	10	0	62	1.27
1422973--1423005	10	3.4	10	87	4	50	51	0	0	48	1.00
1422975--1423014	20	2.1	19	85	4	53	45	0	5	50	1.23
1423158--1423204	23	2.0	23	83	8	58	40	2	2	55	1.24
1423195--1423223	2	14.5	2	100	0	58	51	0	0	48	1.00
1431362--1431393	15	2.0	17	88	11	50	31	15	6	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439759--1439821	29	2.2	29	88	0	90	36	4	26	31	1.78
1441231--1441345	47	2.5	45	84	6	144	41	8	18	31	1.81
1442169--1442224	18	3.1	18	79	7	51	69	5	10	14	1.34
1446447--1446480	13	2.6	13	95	0	59	41	5	17	35	1.74
1450314--1450353	12	3.3	12	85	0	53	0	30	7	62	1.23
1451719--1451803	35	2.4	35	88	0	125	27	15	25	31	1.95
1457549--1457598	25	2.0	26	96	4	93	32	32	16	20	1.94
1464212--1464244	5	6.6	5	92	0	57	21	21	0	57	1.41
1464479--1464512	17	1.9	17	88	5	50	76	5	14	2	1.09
1469051--1469238	44	4.3	43	85	3	250	42	12	21	23	1.86
1474240--1474298	29	2.0	31	86	6	86	30	15	8	45	1.75
1477205--1477352	66	2.2	66	86	0	197	26	14	25	33	1.94
1479440--1479471	14	2.3	14	100	0	64	40	15	31	12	1.85
1480392--1480465	32	2.3	32	83	0	85	40	13	16	29	1.86
1485246--1485297	13	4.0	13	89	0	68	28	21	17	32	1.96
1485239--1485304	13	5.2	13	83	3	64	28	18	15	37	1.91
1485239--1485297	26	2.3	26	88	5	86	28	18	16	35	1.93
1490378--1490556	32	5.6	32	85	0	187	37	10	18	33	1.85
1490379--1490556	96	1.9	96	82	0	230	37	10	18	33	1.85
1492348--1492431	24	3.5	24	85	3	98	14	7	15	63	1.51
1492621--1492720	10	9.4	10	74	14	67	14	9	17	60	1.59
1492635--1492743	23	4.9	23	68	10	73	14	10	16	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492678--1492775	33	3.1	33	77	4	94	12	12	17	58	1.64
1493062--1493127	26	2.3	28	77	17	73	62	4	3	30	1.30
1493084--1493126	12	3.4	12	81	12	59	65	4	0	30	1.13
1493492--1493545	23	2.3	23	83	0	72	40	16	18	24	1.90
1500311--1500357	21	2.1	24	84	11	64	23	17	0	59	1.37
1500357--1500519	45	3.6	45	87	3	238	20	22	13	44	1.86
1500765--1501364	162	3.7	162	88	2	832	31	16	21	30	1.95
1500765--1501373	54	11.3	54	84	2	744	31	16	21	30	1.95
1504560--1504598	2	19.5	2	100	0	78	48	0	0	51	1.00
1505406--1506556	565	2.0	568	93	2	1939	32	19	10	37	1.85
1506883--1507092	45	4.7	45	84	7	266	20	21	11	45	1.83
1507192--1507350	56	2.9	56	88	1	223	32	20	11	35	1.88
1507344--1508010	54	12.4	54	85	1	759	30	16	21	31	1.95
1507739--1507824	27	3.2	27	64	26	65	34	15	18	31	1.92
1508335--1508387	22	2.5	20	80	11	61	26	26	15	32	1.95
1508352--1508429	22	3.6	22	73	18	74	25	19	15	39	1.91
1519982--1520465	243	2.0	242	95	1	862	32	12	21	33	1.91
1526713--1526766	20	2.6	21	91	2	83	27	16	20	35	1.94
1542273--1542339	12	5.5	11	75	16	53	34	13	25	26	1.93
1546978--1547004	9	3.0	9	100	0	54	11	0	11	77	0.99
1547114--1547158	23	2.0	23	95	0	81	35	26	20	17	1.95
1550933--1550988	23	2.3	24	78	12	69	41	23	10	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550944--1550988	23	2.0	23	90	0	72	37	26	13	22	1.91
1552696--1552758	31	2.0	31	96	0	117	23	22	17	36	1.95
1556454--1556496	20	2.2	20	87	4	61	34	9	6	48	1.62
1556936--1556998	31	2.0	31	96	0	117	23	22	17	36	1.95
1563821--1563908	29	3.0	29	79	9	90	38	17	4	39	1.70
1567167--1567349	93	2.0	93	89	4	280	36	14	9	40	1.78
1572245--1572288	22	2.0	22	86	4	63	45	0	6	47	1.29
1573002--1573039	3	12.7	3	100	0	76	68	0	0	31	0.90
1578190--1578311	40	3.0	40	90	4	192	27	16	22	32	1.96
1578416--1578544	44	2.9	44	81	4	159	39	8	20	31	1.82

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