genome.fa.s121.2.7.7.80.10.50.1000.7.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: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2099483

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

This is table  7  of  10  ( 1170 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)
1263345--1263389	19	2.4	19	85	3	56	17	17	4	60	1.53
1265065--1265308	121	2.1	116	86	9	336	39	3	6	50	1.45
1265094--1265332	121	2.0	122	83	8	308	41	3	5	48	1.44
1266273--1266339	27	2.4	27	82	2	71	40	2	0	56	1.14
1267017--1267082	31	2.1	33	85	5	91	37	6	1	54	1.34
1267037--1267161	57	2.2	56	80	12	141	38	7	0	53	1.34
1268312--1268527	120	1.8	120	91	0	360	43	12	13	31	1.80
1273364--1273412	23	2.1	23	84	0	62	12	14	18	55	1.69
1284194--1284265	36	2.1	35	86	5	101	34	16	16	31	1.92
1290380--1290427	22	2.2	22	92	0	78	27	20	27	25	1.99
1292953--1293000	2	24.0	2	100	0	96	50	0	0	50	1.00
1300763--1300787	6	4.2	6	100	0	50	84	0	16	0	0.63
1307708--1307763	24	2.4	22	77	19	60	23	7	14	55	1.63
1308555--1308654	30	3.3	30	71	15	80	58	18	8	16	1.62
1312009--1312048	19	2.1	19	85	0	53	20	35	27	17	1.95
1312397--1312433	9	4.2	9	86	13	51	32	0	0	67	0.91
1312376--1312433	18	3.3	18	77	22	52	32	0	1	65	1.03
1312397--1312450	18	3.2	17	76	23	53	31	0	1	66	1.02
1316701--1316991	144	2.0	145	98	1	566	25	25	21	27	2.00
1321873--1321934	31	2.0	31	93	0	106	24	19	16	40	1.91
1321911--1322038	60	2.1	60	86	2	186	32	12	16	39	1.86
1331198--1331242	23	2.0	23	81	0	54	22	26	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331815--1332192	204	1.9	204	85	2	535	30	30	19	19	1.96
1332376--1332560	75	2.5	75	81	3	203	49	17	5	27	1.70
1345829--1345875	24	1.9	25	87	12	71	59	0	2	38	1.09
1346341--1346373	14	2.3	15	89	5	50	21	0	27	51	1.48
1349855--1350013	64	2.5	63	79	5	167	28	23	16	30	1.97
1353332--1353390	23	2.6	23	91	0	100	33	28	22	15	1.94
1354909--1355070	64	2.5	63	81	6	175	25	23	19	31	1.98
1360554--1360579	10	2.6	10	100	0	52	19	0	7	73	1.07
1361347--1361450	45	2.4	44	77	7	104	50	2	4	41	1.38
1364698--1364838	71	2.0	71	91	5	232	34	25	22	17	1.95
1364698--1364838	35	4.0	36	93	4	234	34	25	22	17	1.95
1373551--1373641	45	2.0	45	91	0	146	46	14	18	20	1.84
1375502--1375540	20	2.0	20	94	0	69	38	23	15	23	1.92
1375515--1375574	30	2.0	30	96	0	111	41	23	15	20	1.89
1375569--1375692	20	6.1	20	81	9	128	41	25	12	21	1.87
1375494--1375594	50	2.0	50	81	9	116	40	22	14	21	1.90
1375856--1375906	22	2.3	22	86	0	75	21	43	13	21	1.87
1378264--1378305	4	10.5	4	89	0	66	28	0	0	71	0.86
1380083--1380128	20	2.3	20	88	0	65	41	23	15	19	1.89
1380144--1380188	20	2.2	20	92	0	72	33	20	22	24	1.97
1380197--1380253	20	2.8	20	78	0	60	19	15	17	47	1.83
1382603--1382639	3	12.3	3	88	0	56	5	29	0	64	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382603--1382635	12	2.8	12	100	0	66	6	27	0	66	1.15
1382814--1382867	24	2.2	24	93	0	90	40	20	18	20	1.91
1383576--1383618	23	1.9	23	90	4	70	39	2	16	41	1.61
1383801--1383908	39	2.8	39	81	13	132	34	11	19	35	1.87
1383821--1383911	19	4.6	19	90	4	128	32	10	20	35	1.88
1383821--1383911	38	2.3	40	90	5	141	32	10	20	35	1.88
1383879--1383950	20	3.5	20	90	1	99	19	12	25	43	1.86
1390769--1390887	31	3.9	31	83	5	152	35	21	19	23	1.96
1390767--1390887	62	2.0	61	88	4	181	35	21	19	23	1.96
1392587--1392625	20	2.0	20	89	0	60	33	23	10	33	1.88
1399198--1399282	31	2.7	31	77	1	89	15	30	29	24	1.95
1413085--1413297	75	2.9	74	80	9	197	51	5	1	41	1.34
1413059--1413170	59	1.9	56	84	8	145	50	3	0	45	1.18
1417720--1418387	157	4.3	158	89	1	966	47	7	19	26	1.75
1426125--1426165	3	13.7	3	100	0	82	65	0	0	34	0.93
1426461--1426503	22	1.9	23	85	4	61	46	4	2	46	1.36
1434894--1435115	110	2.0	111	94	0	392	52	5	27	13	1.63
1435241--1435269	14	2.1	14	100	0	58	37	13	13	34	1.85
1435252--1435318	32	2.1	33	94	2	118	29	10	22	37	1.88
1435712--1435784	8	9.6	8	75	7	55	36	1	24	36	1.64
1435720--1435784	30	2.2	30	82	0	76	38	1	23	36	1.64
1435981--1436209	89	2.6	90	84	0	289	20	10	5	64	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435983--1436224	30	8.1	30	68	16	119	19	9	5	64	1.43
1436107--1436209	15	6.9	15	68	22	65	19	5	5	68	1.31
1436216--1436253	14	2.5	15	83	12	51	23	7	5	63	1.42
1436072--1436253	30	6.1	30	72	16	123	20	8	6	65	1.41
1437817--1437849	17	1.9	17	100	0	66	30	21	6	42	1.77
1443944--1444004	32	1.9	32	100	0	122	45	4	6	42	1.51
1443870--1444078	106	2.0	105	84	0	274	34	8	14	42	1.75
1443975--1444113	74	1.9	74	89	0	215	33	9	14	42	1.78
1444819--1445038	116	1.9	116	87	1	325	38	15	19	26	1.92
1445225--1445287	20	3.2	20	71	13	58	38	12	23	25	1.90
1445186--1445399	116	1.8	115	84	5	288	39	13	21	25	1.90
1445859--1445917	22	2.7	23	86	5	70	27	37	16	18	1.93
1446693--1446735	18	2.4	18	84	3	52	18	0	6	74	1.04
1446707--1446734	13	2.2	13	100	0	56	21	0	0	78	0.75
1447079--1447230	30	5.2	28	71	20	89	19	9	3	67	1.36
1446989--1447232	88	2.8	88	82	3	294	18	10	4	66	1.39
1450282--1450340	24	2.5	24	78	8	59	67	0	11	20	1.21
1450386--1450487	35	3.1	33	74	16	95	62	4	0	31	1.23
1450599--1450658	24	2.8	22	77	22	58	60	0	5	35	1.19
1450644--1450710	28	2.4	29	80	9	77	64	0	7	28	1.21
1452320--1453516	105	11.4	105	96	0	2162	23	18	25	33	1.96
1452320--1453516	526	2.3	526	96	0	2216	23	18	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454241--1454409	80	2.1	80	96	2	313	11	19	13	55	1.68
1457284--1457349	33	2.2	28	78	21	73	25	27	16	30	1.97
1458302--1458347	19	2.4	19	77	0	56	15	26	6	52	1.67
1469435--1469493	24	2.5	24	78	8	59	67	0	11	20	1.21
1469545--1469625	27	2.9	28	77	20	82	62	4	1	30	1.24
1469539--1469608	23	2.8	24	76	16	70	64	2	1	31	1.17
1469532--1469612	25	3.1	26	78	15	94	64	4	1	29	1.22
1469534--1469628	27	3.5	26	73	17	79	65	5	1	28	1.21
1469741--1469800	24	2.8	22	77	22	58	60	0	5	35	1.19
1469776--1469867	34	2.6	37	73	15	86	61	0	5	32	1.18
1469856--1469909	12	4.8	11	82	8	56	55	0	1	42	1.10
1469859--1469919	8	7.1	8	80	14	50	54	0	1	44	1.10
1469859--1469893	2	17.5	2	93	0	61	54	0	0	45	0.99
1476355--1476393	17	2.2	18	86	13	55	56	0	15	28	1.40
1478525--1478565	20	2.0	20	95	0	73	43	0	2	53	1.13
1479465--1479522	21	2.8	21	76	10	64	63	0	1	34	1.04
1482581--1482614	17	2.0	17	100	0	68	29	17	11	41	1.85
1482604--1482674	37	1.9	37	97	0	133	35	12	11	40	1.79
1486986--1487042	20	2.8	20	94	0	105	26	10	33	29	1.90
1486986--1487073	40	2.2	40	82	8	99	31	6	35	26	1.83
1487037--1487077	10	4.1	10	90	0	64	39	0	39	21	1.54
1487167--1487349	7	27.0	7	93	6	324	42	43	0	14	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487167--1487349	20	9.0	21	93	6	324	42	43	0	14	1.46
1489089--1489141	23	2.3	23	90	0	79	35	24	22	16	1.95
1489097--1489143	23	2.0	23	95	0	85	31	25	23	19	1.98
1493932--1493983	20	2.6	20	87	0	77	26	11	28	32	1.91
1494837--1494886	23	2.2	23	85	0	64	30	8	8	54	1.58
1495382--1495421	21	1.9	21	84	0	53	45	25	0	30	1.54
1495728--1495851	41	2.9	43	83	8	164	24	18	23	33	1.97
1495728--1495895	41	4.0	42	81	3	131	22	17	23	35	1.95
1496304--1496393	21	4.3	21	81	2	92	4	33	18	43	1.70
1496306--1496393	41	2.1	42	85	2	115	4	34	18	43	1.70

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