genome.fa.s9014.2.7.7.80.10.50.1000.6.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1552 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)
1247387--1247470	26	3.5	26	68	18	81	20	19	15	45	1.86
1247418--1247490	20	3.3	20	69	20	56	20	23	15	41	1.90
1247530--1247700	26	7.3	26	63	22	108	22	21	12	42	1.87
1251533--1251738	74	2.8	74	79	4	197	38	4	4	51	1.43
1251808--1251957	76	2.0	75	80	8	171	51	4	5	38	1.46
1254243--1254416	95	1.8	94	82	4	224	37	12	21	28	1.89
1254833--1255122	45	6.4	45	88	4	406	34	11	24	29	1.90
1257529--1257569	22	1.9	22	85	5	57	43	2	0	53	1.13
1260487--1260546	27	2.3	26	82	2	66	63	5	0	31	1.16
1262667--1262715	13	3.6	14	76	15	50	42	2	0	55	1.11
1262653--1262704	25	2.1	25	82	13	63	46	0	3	50	1.20
1262890--1262915	2	13.0	2	100	0	52	50	0	0	50	1.00
1263948--1264001	15	3.4	16	85	9	67	74	0	9	16	1.07
1264226--1264283	15	3.4	17	79	11	57	67	0	1	31	1.01
1265398--1265456	7	7.8	8	76	12	54	45	1	0	52	1.10
1266272--1266393	43	2.9	41	83	4	145	22	17	29	31	1.96
1271294--1271344	13	3.9	12	82	12	57	0	19	1	78	0.85
1281737--1281786	15	3.2	16	83	10	59	74	0	10	16	1.08
1281719--1281809	41	2.3	39	78	14	96	73	1	9	15	1.14
1282006--1282052	19	2.3	21	75	17	55	72	0	6	21	1.07
1289210--1289265	29	1.9	30	85	3	78	33	26	7	32	1.84
1289208--1289272	29	2.2	29	80	0	76	33	24	6	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292352--1292472	59	2.0	60	92	3	201	35	23	17	23	1.95
1295837--1295895	30	1.9	31	89	3	93	33	3	13	49	1.59
1295847--1295912	15	4.4	15	78	0	78	31	6	18	43	1.74
1295847--1295912	30	2.2	30	86	0	87	31	6	18	43	1.74
1301472--1301508	18	2.1	18	94	0	65	27	32	18	21	1.97
1301802--1301877	8	10.6	7	70	24	52	38	14	1	46	1.53
1301810--1301868	14	4.3	14	81	12	68	37	15	1	45	1.56
1301796--1301877	28	2.9	28	73	23	73	37	14	2	45	1.58
1306395--1306450	21	2.7	21	77	0	58	41	23	12	23	1.88
1310083--1310167	15	5.7	15	84	0	89	35	3	21	40	1.70
1310270--1310345	23	3.3	23	76	7	82	22	23	22	31	1.98
1313492--1313588	42	2.3	42	96	0	176	36	27	4	31	1.76
1325437--1325484	20	2.5	19	83	6	53	31	12	29	27	1.93
1325819--1325854	16	2.3	16	90	4	56	61	2	5	30	1.33
1326566--1326624	29	2.1	29	90	3	93	59	13	11	15	1.62
1328035--1328091	3	19.7	3	79	13	66	64	0	1	33	1.04
1328489--1328904	55	7.6	55	87	5	563	38	10	16	34	1.83
1328489--1328903	165	2.5	165	92	1	663	38	9	16	34	1.82
1331406--1331447	2	20.5	2	95	4	75	47	0	2	50	1.14
1337597--1337869	55	5.0	55	89	0	386	38	10	16	34	1.83
1342627--1342682	26	2.2	26	100	0	112	48	0	30	21	1.51
1347603--1347719	30	3.9	29	74	6	101	54	5	14	24	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349417--1349539	43	3.0	41	71	14	110	24	17	31	26	1.97
1349463--1349784	133	2.4	134	88	1	466	25	19	31	23	1.98
1349745--1349834	45	2.0	45	100	0	180	35	20	24	20	1.96
1349744--1349848	45	2.5	42	88	10	151	34	19	25	20	1.96
1350069--1350295	91	2.5	89	82	12	282	44	14	12	27	1.82
1350148--1350350	29	6.9	30	70	22	126	45	13	12	28	1.80
1350241--1350349	29	3.8	29	86	4	132	48	14	10	26	1.75
1350321--1350400	33	2.5	33	82	6	94	41	8	17	32	1.80
1350551--1350622	37	1.9	37	83	5	92	36	11	9	43	1.73
1350653--1350712	31	1.9	31	90	6	95	43	15	13	28	1.84
1350827--1351135	108	2.9	104	80	8	381	41	10	15	32	1.81
1350828--1351170	103	3.3	103	74	14	306	41	10	15	32	1.81
1351529--1351568	16	2.5	16	88	8	55	22	2	25	50	1.62
1357152--1357268	30	3.9	29	74	6	101	54	5	14	24	1.62
1358954--1358985	3	10.7	3	100	0	64	68	0	0	31	0.90
1364885--1364913	9	3.3	9	95	4	51	37	0	0	62	0.96
1366822--1366907	3	28.0	3	83	9	111	66	2	1	30	1.12
1366822--1366904	34	2.4	34	84	4	114	66	2	1	30	1.12
1367026--1367508	45	10.8	45	97	1	907	33	19	23	22	1.97
1367026--1367508	223	2.2	226	96	1	918	33	19	23	22	1.97
1368156--1368230	22	3.4	22	90	0	123	34	13	17	34	1.89
1368593--1368747	54	2.9	53	80	3	166	23	21	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377935--1377963	9	3.3	9	95	4	51	37	0	0	62	0.96
1379826--1379864	3	13.0	3	89	10	62	69	0	0	30	0.89
1379827--1379866	21	1.9	21	100	0	80	72	0	0	27	0.85
1383427--1383472	25	2.0	22	87	12	65	43	28	0	28	1.55
1393344--1393392	6	8.2	6	81	0	53	40	16	2	40	1.60
1393567--1393661	30	3.2	29	82	5	109	30	17	9	42	1.81
1393580--1393672	30	3.1	30	85	0	132	33	17	9	39	1.82
1393741--1393906	38	4.5	37	82	8	189	25	28	21	24	1.99
1393819--1393880	17	3.6	17	72	20	65	27	32	22	17	1.97
1393871--1393916	18	2.4	18	85	10	56	21	28	26	23	1.99
1396068--1396133	31	2.2	31	86	2	89	36	18	7	37	1.79
1396965--1397068	9	11.9	9	78	12	83	2	17	0	79	0.85
1396966--1397069	25	4.3	23	75	15	95	2	17	0	79	0.85
1396972--1397057	34	2.6	33	92	3	145	2	18	0	79	0.85
1399786--1399834	6	8.2	6	81	0	53	36	18	2	42	1.62
1400009--1400109	30	3.4	29	82	6	121	30	17	10	40	1.84
1400181--1400287	38	2.8	37	90	2	160	27	25	23	24	2.00
1400261--1400304	17	2.6	17	92	0	70	31	27	20	20	1.97
1400295--1400365	21	3.5	20	81	10	83	25	26	23	23	2.00
1409424--1409469	21	2.1	22	92	4	76	23	28	21	26	1.99
1411596--1411629	15	2.3	15	100	0	68	20	14	32	32	1.93
1411637--1411684	24	2.0	24	100	0	96	29	16	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1419860--1419902	18	2.4	18	88	0	59	72	0	4	23	1.04
1420550--1420665	32	3.2	32	65	28	81	60	12	1	25	1.42
1420515--1420701	76	2.5	76	95	1	331	58	12	1	27	1.43
1422365--1422408	18	2.4	18	80	3	52	54	4	6	34	1.47
1422365--1422403	18	2.1	19	85	4	53	56	5	5	33	1.43
1430743--1430784	22	1.9	22	85	0	57	57	7	2	33	1.39
1433905--1433956	27	2.0	27	88	3	79	69	0	26	3	1.06
1435706--1435766	13	4.3	13	77	18	68	16	47	21	14	1.82
1435684--1435760	18	4.6	18	81	15	110	16	50	20	11	1.76
1435688--1435766	31	2.5	31	95	0	149	16	48	21	13	1.81
1437062--1437096	18	1.9	18	88	0	52	54	0	17	28	1.43
1450072--1450126	28	2.1	27	83	12	71	21	12	12	52	1.72
1450580--1450668	32	2.8	32	84	3	99	43	12	13	30	1.81
1450580--1450679	32	3.1	32	81	5	87	44	14	13	29	1.82
1454785--1454869	3	28.0	3	97	2	161	67	0	0	32	0.91
1456647--1456674	2	14.0	2	100	0	56	50	0	0	50	1.00
1456760--1456875	62	1.9	61	85	5	162	33	8	11	46	1.70
1457859--1457892	2	17.0	2	100	0	68	50	0	0	50	1.00
1461960--1462019	14	4.2	14	91	2	93	40	0	31	28	1.57
1465335--1465405	29	2.4	29	80	11	74	30	16	5	46	1.70
1465738--1465787	26	1.9	26	84	8	66	28	0	12	60	1.32
1468124--1468194	21	3.4	21	82	0	70	43	19	18	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477751--1477794	20	2.1	21	83	4	54	34	2	6	56	1.38
1481823--1481864	3	14.0	3	89	0	66	61	2	0	35	1.09
1485362--1485417	25	2.3	25	78	3	60	28	0	17	53	1.44
1488067--1488240	89	2.0	88	90	2	276	44	7	11	36	1.69
1492411--1492511	2	51.5	2	92	3	170	47	0	1	50	1.12
1492938--1492994	23	2.5	24	71	21	59	59	19	12	8	1.58
1493740--1493780	12	3.5	12	93	6	75	17	0	7	75	1.02
1493740--1493778	11	3.5	11	96	3	69	15	0	7	76	0.99
1494858--1494912	27	2.0	27	100	0	110	29	18	25	27	1.98
1499223--1499264	18	2.3	19	84	12	61	61	4	9	23	1.45

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13