genome.fa.s8953.2.7.7.80.10.50.1000.8.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  8  of  15  ( 1787 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)
1237471--1237510	20	2.0	20	95	0	71	32	0	0	67	0.91
1237472--1237528	23	2.4	24	94	5	98	31	0	0	68	0.90
1238913--1238975	23	2.7	23	75	18	67	17	4	6	71	1.25
1243142--1243456	116	2.7	116	91	3	501	33	25	17	24	1.96
1243663--1243770	36	3.0	35	85	5	144	27	17	12	42	1.85
1243805--1243941	73	1.9	73	93	0	238	21	18	15	44	1.86
1243785--1243943	37	4.4	37	82	3	198	22	20	14	42	1.88
1243929--1244022	37	2.7	35	90	6	145	43	19	8	28	1.80
1244038--1244209	83	2.1	84	82	3	204	33	23	20	23	1.97
1244555--1244596	3	14.0	3	90	9	68	30	0	0	69	0.89
1244551--1244596	22	2.1	22	96	4	85	30	0	0	69	0.89
1244554--1244615	12	5.2	11	81	11	61	27	0	0	72	0.85
1245997--1246036	21	1.9	21	85	10	55	20	5	2	72	1.15
1245982--1246049	26	2.7	25	84	6	84	20	2	4	72	1.16
1245997--1246059	26	2.5	26	84	7	85	20	4	3	71	1.18
1246005--1246074	23	3.0	24	74	19	69	17	4	5	72	1.20
1250476--1250843	36	10.2	35	70	16	152	41	3	8	46	1.52
1250504--1250775	38	7.5	35	78	13	225	42	4	8	45	1.52
1256846--1256906	23	2.7	23	97	0	113	32	13	13	40	1.82
1256817--1256940	19	6.1	19	82	13	90	31	12	14	41	1.84
1257505--1257578	31	2.4	31	88	11	123	32	17	29	20	1.95
1259279--1259433	50	3.0	50	84	5	184	38	14	8	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267072--1267347	137	2.0	138	99	0	545	26	22	15	36	1.94
1267284--1267689	202	2.0	202	100	0	812	25	20	14	39	1.90
1292973--1293997	512	2.0	512	99	0	2032	43	17	13	25	1.86
1299963--1300003	17	2.4	17	88	8	57	70	2	7	19	1.22
1309623--1309698	31	2.5	31	84	0	89	50	6	3	39	1.47
1311331--1311360	11	2.8	11	95	5	53	10	30	0	60	1.30
1311331--1311368	11	3.5	11	85	3	51	10	31	0	57	1.32
1312919--1313058	45	3.1	45	79	4	147	20	21	31	26	1.98
1315608--1315677	31	2.3	31	75	9	72	38	14	17	30	1.89
1316756--1316814	24	2.5	24	100	0	118	32	16	27	23	1.96
1317407--1317456	22	2.3	22	100	0	100	36	6	30	28	1.81
1317998--1318119	31	4.0	31	86	2	156	19	18	22	40	1.92
1317998--1318116	61	1.9	62	84	1	159	20	17	21	40	1.92
1318342--1318380	12	3.2	12	79	13	53	43	5	23	28	1.75
1318331--1318388	24	2.4	24	94	0	98	41	5	20	32	1.75
1320521--1320625	45	2.3	45	83	3	131	26	30	21	20	1.98
1322203--1322232	10	2.8	11	95	5	53	60	0	30	10	1.30
1324563--1324613	13	3.6	13	78	19	50	66	1	0	31	1.03
1324599--1324660	26	2.4	25	78	5	61	67	3	1	27	1.15
1326353--1326916	113	5.0	113	89	2	816	27	18	15	38	1.92
1326353--1326918	225	2.5	225	88	2	836	27	18	15	37	1.92
1327284--1327325	22	1.9	22	85	0	57	38	14	19	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327690--1327908	54	3.9	54	68	21	155	24	25	15	34	1.94
1327716--1327938	115	1.9	115	100	0	446	22	25	17	34	1.95
1337522--1337556	2	17.5	2	93	0	61	51	0	0	48	1.00
1338635--1338674	9	4.4	9	84	12	55	75	2	2	20	1.04
1338774--1338850	33	2.4	34	78	12	81	66	3	5	24	1.30
1338787--1338850	33	2.0	33	84	3	85	70	4	3	21	1.20
1339025--1339081	13	4.1	14	78	15	55	59	0	3	36	1.14
1339029--1339085	19	3.1	18	82	12	62	63	0	3	33	1.12
1340368--1340477	36	3.1	36	75	5	116	39	14	20	25	1.91
1340491--1340548	29	2.0	30	83	10	75	34	12	15	37	1.85
1340504--1340761	99	2.6	100	86	5	303	36	13	18	30	1.90
1340630--1340702	37	2.0	37	88	0	110	38	15	20	26	1.92
1340619--1340912	148	2.0	151	88	3	443	36	13	19	29	1.91
1340781--1340951	36	4.9	35	66	15	104	38	14	20	27	1.91
1340879--1340951	37	2.0	37	88	0	110	38	15	20	26	1.92
1340767--1341128	102	3.6	101	82	1	366	38	13	18	28	1.89
1340908--1341431	167	3.1	167	92	1	856	40	12	17	29	1.86
1340908--1341431	166	3.1	167	92	1	856	40	12	17	29	1.86
1341148--1341227	37	2.2	36	84	2	97	42	13	18	25	1.87
1341084--1341282	101	2.0	101	86	3	283	42	12	18	27	1.86
1341185--1341349	65	2.5	65	86	3	217	40	11	19	29	1.86
1341579--1341857	104	2.7	101	82	7	324	23	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341579--1341898	105	3.0	104	83	3	374	22	19	24	34	1.97
1343694--1343740	12	4.0	12	86	10	53	2	10	2	85	0.78
1343680--1343736	24	2.5	22	78	16	62	5	12	1	80	0.95
1343693--1343740	24	2.0	24	91	0	78	4	10	2	83	0.87
1346890--1346936	17	2.7	17	81	12	60	72	0	12	14	1.13
1347036--1347093	16	3.5	17	77	11	59	75	0	3	20	0.94
1347082--1347151	35	2.1	34	86	7	99	68	2	5	22	1.24
1347189--1347229	2	21.0	2	83	14	50	51	0	4	43	1.23
1347192--1347256	23	3.0	21	86	10	80	61	0	3	35	1.12
1347192--1347288	23	4.3	23	75	16	71	62	0	5	31	1.17
1347217--1347294	21	3.7	20	73	24	63	66	0	3	29	1.09
1353774--1353809	17	2.1	18	94	5	65	0	13	5	80	0.88
1354050--1354140	27	3.4	27	98	0	173	19	18	42	18	1.89
1354258--1354369	3	36.7	3	80	7	127	60	0	1	36	1.13
1354996--1355699	113	6.2	112	87	7	871	30	19	14	35	1.92
1355010--1355686	229	3.0	224	85	7	881	30	19	14	35	1.91
1356119--1356173	22	2.5	22	90	0	92	38	14	12	34	1.84
1356542--1356742	54	3.8	53	84	6	241	24	22	14	38	1.92
1356542--1356742	104	1.9	104	86	6	287	24	22	14	38	1.92
1357871--1358070	104	1.9	104	90	0	319	36	21	11	31	1.89
1358090--1358645	84	6.7	84	95	2	951	36	21	13	28	1.91
1358090--1358647	249	2.2	251	93	2	955	36	21	13	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362153--1362184	1	32.0	1	100	0	64	0	0	0	100	0.00
1363492--1363531	14	2.9	14	88	0	62	55	5	12	27	1.58
1364954--1364990	15	2.7	15	88	12	53	62	8	5	24	1.44
1366826--1366858	15	2.1	17	88	11	52	0	15	3	81	0.80
1367099--1367189	27	3.4	27	98	0	173	19	18	42	18	1.89
1367306--1367405	3	32.7	3	85	4	137	62	0	2	36	1.07
1370107--1370381	74	3.7	73	81	8	281	28	12	10	48	1.73
1375833--1375904	37	1.9	37	97	0	135	18	19	12	50	1.78
1378676--1378726	19	2.7	19	96	0	93	15	21	31	31	1.95
1378734--1378768	17	2.0	18	88	5	54	42	5	8	42	1.59
1378785--1378816	13	2.5	13	100	0	64	28	21	25	25	1.99
1380569--1380655	31	2.8	32	77	7	88	18	31	24	26	1.98
1381072--1381123	26	2.0	26	100	0	104	26	23	15	34	1.94
1385006--1385077	2	37.0	2	94	5	130	48	0	0	51	1.00
1389672--1389721	20	2.5	20	96	0	91	22	14	32	32	1.93
1390485--1390517	17	1.9	17	93	0	57	36	3	6	54	1.41
1395638--1395754	43	2.7	44	85	2	155	29	23	17	29	1.97
1395853--1396023	72	2.4	71	86	2	234	39	14	18	28	1.90
1396196--1396226	3	10.3	3	100	0	62	35	0	0	64	0.94
1397096--1397181	6	14.8	6	75	11	63	41	1	0	56	1.06
1397098--1397177	12	6.9	12	75	13	78	40	1	0	58	1.06
1397122--1397177	15	3.7	15	90	0	85	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397101--1397174	24	3.1	24	86	3	96	40	1	0	58	1.07
1399252--1399601	131	2.7	131	85	3	465	32	10	16	40	1.83
1402972--1403024	3	18.3	3	81	14	67	35	0	0	64	0.94
1404294--1404335	19	2.2	19	83	8	50	19	11	2	66	1.34
1407324--1407384	7	8.4	7	78	12	61	83	3	13	0	0.76
1407332--1407380	15	3.2	15	81	16	64	85	4	10	0	0.71
1407339--1407373	16	2.1	16	89	5	52	85	5	8	0	0.73
1407323--1407380	31	1.9	31	92	3	100	82	5	12	0	0.82
1408011--1408052	22	1.9	22	90	0	66	42	21	11	23	1.86
1408787--1409680	105	8.5	106	93	1	1438	33	25	18	22	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15