genome.fa.s8319.2.7.7.80.10.50.1000.6.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

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

This is table  6  of  21  ( 2487 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)
1220745--1220793	19	2.6	19	93	0	80	30	2	10	57	1.43
1220910--1221264	190	1.9	191	89	8	562	36	15	16	30	1.90
1222170--1222479	161	1.9	160	98	1	595	34	18	18	28	1.95
1222866--1222919	12	4.6	12	83	4	74	37	11	35	16	1.84
1222889--1222957	3	23.0	3	78	0	75	36	5	33	24	1.80
1222874--1222957	12	7.1	12	84	2	89	36	7	33	22	1.82
1223944--1223980	15	2.5	15	87	12	58	18	0	24	56	1.41
1224122--1224155	16	2.1	16	88	0	50	47	8	20	23	1.78
1224517--1224584	23	3.0	23	88	0	100	33	4	22	39	1.74
1227699--1227758	25	2.4	25	88	0	84	33	8	15	43	1.76
1228565--1228635	23	3.1	23	89	0	106	35	4	21	39	1.73
1228976--1229022	21	2.2	22	81	11	62	40	12	10	36	1.78
1229042--1229100	23	2.6	23	86	0	82	35	5	22	37	1.76
1229042--1229109	23	3.0	23	80	8	75	33	4	22	39	1.74
1229519--1229572	20	2.6	21	85	5	83	33	5	24	37	1.79
1229519--1229580	20	3.0	21	79	13	74	32	4	24	38	1.76
1229989--1230052	21	3.0	21	81	4	74	31	4	23	40	1.75
1230456--1230518	22	2.8	23	82	2	83	38	4	20	36	1.74
1230456--1230527	23	3.2	23	76	9	76	36	4	20	38	1.72
1227763--1231157	944	3.6	959	92	6	5728	39	7	12	40	1.71
1230863--1230908	21	2.2	21	81	14	60	39	13	10	36	1.79
1230929--1230999	21	3.3	21	88	4	97	35	4	21	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227763--1231157	471	7.2	478	92	6	5608	39	7	12	40	1.71
1231257--1231307	25	2.0	25	92	0	84	33	7	19	39	1.81
1231955--1232041	39	2.2	39	95	0	156	48	20	13	17	1.81
1232367--1232412	22	2.1	22	83	0	56	43	6	8	41	1.61
1232430--1232525	23	4.2	23	85	5	113	35	6	19	38	1.77
1232928--1232975	23	2.1	23	88	0	69	39	18	6	35	1.76
1252954--1253162	53	3.9	53	88	0	292	22	23	21	32	1.98
1253626--1253877	80	3.2	80	90	0	396	29	21	17	32	1.96
1253835--1253914	42	1.9	42	94	0	142	36	22	17	23	1.95
1266203--1266395	37	5.1	37	76	12	146	46	5	4	44	1.45
1266203--1266397	38	5.2	38	76	12	172	46	5	4	44	1.44
1266359--1266459	32	3.2	31	83	10	125	44	2	2	49	1.32
1266509--1266534	13	2.0	13	100	0	52	15	0	7	76	0.99
1269259--1269291	17	1.9	17	93	0	57	6	12	9	72	1.26
1269914--1269958	19	2.4	19	92	3	74	11	13	8	66	1.44
1273356--1274005	165	3.9	165	88	1	885	30	23	21	24	1.99
1273362--1274005	329	1.9	330	86	2	900	30	23	21	24	1.99
1274563--1274755	37	5.1	37	76	12	146	46	5	4	44	1.45
1274563--1274757	38	5.2	38	76	12	172	46	5	4	44	1.44
1274719--1274819	32	3.2	31	83	10	125	44	2	2	49	1.32
1274869--1274894	13	2.0	13	100	0	52	15	0	7	76	0.99
1276341--1276396	14	4.3	14	78	17	66	8	12	25	53	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276342--1276416	24	3.1	24	86	3	98	12	10	21	56	1.66
1277144--1277234	10	9.7	10	66	25	56	8	10	23	57	1.61
1277150--1277227	16	4.9	16	93	0	138	7	11	24	56	1.61
1277300--1277332	16	2.1	16	100	0	66	6	12	24	57	1.57
1277773--1277828	8	6.1	9	80	19	55	19	1	1	76	0.96
1277757--1277817	15	4.1	14	78	14	59	14	1	1	81	0.84
1277761--1277829	15	4.5	15	76	16	54	18	1	2	76	0.98
1277759--1277816	31	1.9	31	89	3	91	15	1	1	81	0.86
1282565--1282614	2	25.0	2	100	0	100	50	0	0	50	1.00
1286258--1286315	30	1.9	30	89	0	89	32	20	25	20	1.97
1299146--1299211	15	4.4	15	79	7	71	31	50	9	9	1.65
1299146--1299236	30	3.0	29	76	6	83	36	47	9	6	1.63
1299137--1299225	45	2.0	45	86	4	126	34	44	12	7	1.71
1302468--1302516	19	2.7	17	84	9	53	26	18	30	24	1.98
1302468--1302647	64	2.8	60	80	12	184	27	15	26	30	1.96
1302594--1302644	19	2.7	19	85	8	70	25	15	35	23	1.94
1302658--1302697	21	1.9	21	94	0	71	22	15	30	32	1.94
1305260--1305314	21	2.6	21	97	0	101	25	23	27	23	2.00
1305238--1305359	65	1.9	64	86	6	174	26	22	26	25	2.00
1308367--1308461	2	47.5	2	100	0	190	49	0	0	50	1.00
1310839--1311018	64	2.8	62	78	9	170	28	15	26	29	1.96
1310965--1311015	19	2.7	19	85	8	70	25	15	35	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311029--1311068	21	1.9	21	85	10	55	27	15	25	32	1.95
1311932--1311976	22	2.0	22	91	0	72	48	0	13	37	1.42
1312922--1312979	23	2.6	24	82	15	72	24	15	27	32	1.95
1315823--1315895	34	2.1	35	85	5	96	24	26	15	34	1.94
1316109--1316148	21	1.9	22	90	10	66	10	10	40	40	1.72
1316144--1316185	17	2.5	17	100	0	84	33	11	7	47	1.68
1330627--1330659	16	2.1	16	94	0	57	54	0	0	45	0.99
1334268--1334300	17	1.9	17	100	0	66	66	0	3	30	1.06
1341045--1341082	19	2.0	19	90	10	60	13	31	31	23	1.93
1342811--1342882	30	2.3	30	95	4	126	37	18	2	41	1.65
1343121--1343164	17	2.6	17	82	7	54	59	25	0	15	1.37
1345078--1345117	21	1.9	21	89	0	62	10	25	40	25	1.86
1348969--1349008	21	1.9	21	85	10	55	35	10	2	52	1.48
1352531--1352568	19	2.0	19	85	10	51	50	2	7	39	1.46
1352831--1352869	20	1.9	21	84	5	53	41	5	2	51	1.38
1353986--1354023	19	2.0	19	90	10	60	13	31	31	23	1.93
1361319--1361410	39	2.4	39	98	0	175	29	13	13	44	1.81
1367244--1367300	26	2.3	26	87	6	82	26	3	17	52	1.60
1368469--1368663	39	5.0	39	76	9	132	38	22	15	23	1.92
1369642--1369743	38	2.7	38	95	1	179	22	26	25	25	2.00
1369898--1370084	45	4.3	44	91	7	271	32	18	7	41	1.79
1369898--1370084	89	2.2	85	87	10	265	32	18	7	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370778--1370843	33	2.0	34	93	3	116	22	24	33	19	1.97
1375958--1376037	21	3.9	21	72	21	80	21	27	26	25	1.99
1375958--1376061	21	5.4	19	66	25	58	21	26	25	25	1.99
1375960--1376061	38	2.7	38	96	0	186	21	27	25	25	1.99
1376223--1376419	46	4.3	46	92	0	315	31	18	8	41	1.80
1377910--1377970	23	2.7	23	92	0	104	16	26	27	29	1.97
1378458--1378486	13	2.3	13	94	5	51	55	6	37	0	1.27
1383579--1383638	23	2.6	23	97	0	111	16	28	28	26	1.97
1392100--1392125	13	2.0	13	100	0	52	15	7	7	69	1.35
1393020--1393060	18	2.3	18	91	0	64	41	7	26	24	1.81
1403028--1403073	23	2.0	23	100	0	92	43	8	4	43	1.55
1407795--1407822	2	14.0	2	100	0	56	50	0	0	50	1.00
1417353--1417443	20	4.9	20	68	20	72	34	5	15	45	1.69
1417352--1417499	53	2.8	52	95	3	271	33	5	13	47	1.65
1417458--1417497	20	2.0	20	95	0	71	37	5	12	45	1.64
1428535--1428647	41	2.8	40	95	2	208	32	30	15	22	1.94
1433265--1433334	35	2.0	35	88	0	104	44	4	11	40	1.60
1444514--1444587	36	2.0	37	94	2	132	48	14	22	13	1.79
1447364--1447471	52	2.1	53	91	1	173	29	17	14	37	1.90
1452446--1452552	24	4.5	24	81	4	126	52	16	13	17	1.75
1452446--1452524	12	6.6	11	70	13	50	51	16	15	16	1.76
1452444--1452554	48	2.3	48	85	3	143	52	16	13	18	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455228--1455267	21	1.9	21	90	10	64	27	20	0	52	1.46
1458976--1459081	52	2.0	53	94	1	187	27	19	16	35	1.94
1458986--1459095	52	2.1	52	88	3	159	29	20	15	34	1.94
1462794--1462824	16	1.9	16	100	0	62	51	19	9	19	1.74
1463137--1463169	17	2.0	17	88	5	50	39	0	0	60	0.97
1465112--1465144	17	1.9	17	100	0	66	30	12	6	51	1.63
1469028--1469232	34	6.0	34	94	0	347	22	24	14	38	1.91
1474012--1474075	23	2.8	23	76	4	76	29	26	23	20	1.99
1474091--1474411	103	3.1	103	95	0	588	36	23	13	25	1.92
1474889--1474925	19	1.9	19	88	0	56	10	29	35	24	1.89

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