genome.fa.s4862.2.7.7.80.10.50.1000.7.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: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

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

This is table  7  of  13  ( 1530 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)
1261366--1261455	23	3.8	23	82	7	101	40	18	14	26	1.89
1262591--1262626	18	2.0	18	88	0	54	30	16	0	52	1.44
1263902--1263949	10	5.6	9	81	18	50	22	20	35	20	1.96
1263936--1264003	13	5.5	13	79	10	79	16	20	45	17	1.85
1265194--1265245	24	2.1	25	92	3	88	28	1	19	50	1.58
1268773--1268813	14	2.9	14	83	16	50	78	2	0	19	0.87
1272313--1272387	26	2.9	26	97	0	141	21	13	32	33	1.92
1273623--1273687	13	5.0	13	80	0	76	27	24	16	30	1.97
1273913--1273972	2	30.0	2	93	6	104	48	1	0	50	1.11
1274901--1275031	29	4.6	30	79	12	132	35	5	18	41	1.73
1274901--1275023	28	4.3	27	82	11	140	34	5	18	40	1.75
1274901--1275031	56	2.3	57	84	5	158	35	5	18	41	1.73
1282204--1282355	30	5.2	29	81	9	175	34	4	19	41	1.72
1282204--1282352	59	2.5	59	89	4	212	35	4	19	40	1.73
1282204--1282383	29	6.1	29	80	7	186	35	4	18	42	1.70
1283685--1283752	32	2.2	32	97	2	129	26	2	16	54	1.56
1289411--1289490	23	3.4	24	82	3	92	32	23	23	20	1.98
1289597--1289673	15	5.1	15	73	6	75	40	24	9	25	1.85
1290622--1290823	101	2.0	101	100	0	404	35	23	8	31	1.86
1296521--1296565	23	2.0	23	90	0	72	31	20	31	17	1.96
1296675--1296743	15	4.6	15	77	0	66	37	24	7	30	1.83
1307969--1308026	15	3.9	15	83	0	71	41	20	1	36	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315074--1315105	15	2.1	15	94	0	55	21	15	31	31	1.95
1316916--1316964	24	2.1	24	88	3	73	32	24	24	18	1.97
1316926--1316977	23	2.2	24	86	3	70	30	21	25	23	1.99
1317123--1317175	15	3.5	15	79	7	54	37	22	1	37	1.65
1320270--1320307	12	3.2	12	100	0	76	15	36	7	39	1.77
1326665--1326712	21	2.2	22	92	7	89	31	25	16	27	1.97
1326860--1326908	21	2.3	21	89	6	73	32	20	8	38	1.82
1327261--1327447	52	3.5	55	79	10	224	30	19	17	32	1.95
1335741--1335774	16	2.1	16	94	0	59	17	35	0	47	1.48
1337531--1337590	31	1.9	31	82	0	75	41	5	11	41	1.63
1338258--1338292	10	3.4	10	88	4	52	51	2	0	45	1.16
1340483--1340655	75	2.3	75	85	3	235	35	16	22	25	1.94
1341333--1341520	68	2.8	68	92	0	313	29	15	25	29	1.96
1341503--1341892	81	4.8	81	86	1	521	37	13	21	27	1.91
1345418--1345525	57	1.9	57	84	3	146	40	10	17	31	1.83
1345722--1345854	68	2.0	68	93	0	230	27	13	25	33	1.94
1346221--1346254	14	2.3	15	90	5	52	70	0	0	29	0.87
1346207--1346265	19	3.1	19	83	14	77	66	0	1	32	1.02
1346207--1346268	18	3.0	20	80	20	67	66	0	1	32	1.02
1346221--1346267	15	3.2	15	82	8	53	65	0	2	31	1.04
1346233--1346282	25	2.0	25	88	11	75	62	2	4	32	1.25
1347777--1348454	106	6.4	106	91	0	1088	23	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359657--1359718	19	3.1	21	82	15	78	61	0	1	37	1.06
1359657--1359725	22	3.1	22	88	10	97	62	0	1	36	1.04
1360836--1361447	81	7.6	81	89	0	873	35	12	23	28	1.91
1370701--1370767	30	2.3	30	89	2	100	50	16	0	32	1.45
1379583--1379617	18	1.9	18	88	0	52	22	22	25	28	1.99
1380260--1380311	18	3.0	17	71	15	52	55	5	3	34	1.42
1380660--1380714	27	2.0	27	89	0	83	34	14	20	30	1.92
1387145--1387307	65	2.6	61	81	10	184	28	23	19	28	1.98
1395626--1395815	65	3.0	63	78	12	190	31	24	17	26	1.97
1395787--1395835	19	2.6	19	84	9	57	24	28	20	26	1.99
1398992--1399026	15	2.2	16	90	5	54	37	11	8	42	1.72
1401078--1401438	2	187.5	2	69	20	173	48	1	4	45	1.31
1401644--1401704	16	3.5	16	71	26	52	39	8	9	42	1.68
1401716--1401796	2	40.5	2	100	0	162	49	0	0	50	1.00
1401881--1401918	7	5.6	7	87	6	60	47	36	0	15	1.46
1401885--1401918	13	2.5	14	95	4	61	44	38	0	17	1.49
1401881--1401918	20	1.9	20	94	0	67	47	36	0	15	1.46
1402001--1402105	22	5.1	20	76	19	67	42	7	7	41	1.62
1402048--1402106	22	2.7	22	78	17	68	42	8	5	44	1.57
1402116--1402204	21	4.2	21	74	8	72	39	6	6	47	1.57
1402116--1402190	14	5.3	14	70	3	51	38	6	6	48	1.56
1402131--1402233	22	4.8	21	76	11	75	37	5	7	48	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402222--1402438	15	14.4	14	68	24	97	46	3	2	48	1.31
1402247--1402439	7	26.7	7	67	22	57	47	2	2	47	1.27
1402247--1402314	21	3.2	21	79	10	68	47	4	1	47	1.31
1402173--1402384	88	2.4	89	80	9	240	43	4	3	48	1.40
1402312--1402448	6	22.3	6	68	20	54	48	1	2	47	1.26
1402215--1402439	28	8.0	30	73	16	128	46	3	2	48	1.32
1402159--1402367	110	1.9	109	79	9	237	42	5	3	48	1.44
1402351--1402425	23	3.3	23	71	26	63	50	1	1	46	1.18
1402346--1402427	39	2.0	44	86	11	120	51	1	1	46	1.16
1402343--1402439	50	1.9	51	85	10	137	51	1	1	46	1.14
1402374--1402453	28	2.7	29	86	11	101	51	0	2	46	1.14
1403136--1403186	19	2.8	19	82	8	63	37	43	7	11	1.71
1403158--1403261	43	2.4	43	79	6	122	43	38	4	13	1.65
1403528--1403569	17	2.5	17	96	0	75	11	7	16	64	1.48
1403557--1403765	102	2.0	102	96	0	382	18	8	22	51	1.72
1406303--1406361	20	3.0	20	94	0	100	8	38	16	35	1.80
1406303--1406356	10	5.4	10	76	8	56	9	38	16	35	1.81
1406931--1406977	14	3.7	14	71	26	50	51	4	0	44	1.21
1406929--1406978	23	2.1	24	96	3	93	48	4	0	48	1.20
1407253--1407297	16	2.9	15	87	9	63	46	11	22	20	1.81
1407597--1407688	28	3.2	28	63	19	73	11	25	10	52	1.70
1411807--1411841	3	11.7	3	93	0	61	62	2	34	0	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412170--1412272	54	1.9	54	90	2	163	28	14	7	49	1.71
1413755--1413809	27	2.0	27	100	0	110	29	12	10	47	1.76
1414537--1414633	39	2.5	39	79	1	115	43	21	14	20	1.87
1415918--1416032	42	2.7	43	78	6	112	30	18	16	34	1.93
1415939--1416071	40	3.2	40	81	6	124	27	17	18	36	1.93
1416008--1416088	40	2.0	40	90	7	128	28	18	20	32	1.97
1418417--1418457	21	2.0	21	90	0	64	19	12	0	68	1.21
1423939--1423998	16	3.6	16	86	4	66	53	25	0	21	1.46
1423973--1424005	14	2.3	15	89	5	50	48	24	3	24	1.65
1424347--1424444	31	2.9	32	77	14	108	26	21	11	40	1.87
1424318--1424461	36	4.0	36	78	14	147	27	21	11	39	1.88
1424584--1424744	66	2.5	66	79	8	186	26	11	15	46	1.80
1424783--1424871	34	2.8	31	80	9	90	35	14	13	35	1.86
1424801--1424871	34	2.1	34	89	5	108	40	15	11	32	1.83
1425545--1425580	14	2.6	14	100	0	72	33	30	13	22	1.93
1426046--1426070	13	1.9	13	100	0	50	56	0	20	24	1.43
1426868--1427029	30	5.4	29	77	8	139	16	14	9	58	1.62
1426868--1426964	28	3.4	28	78	13	90	15	16	8	59	1.59
1426982--1427064	32	2.7	31	79	17	93	14	12	14	59	1.62
1429037--1429143	41	2.6	41	95	2	189	30	28	9	30	1.88
1429535--1429617	15	5.6	15	69	11	64	49	0	0	50	1.00
1441494--1441589	31	3.1	31	81	0	129	25	19	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441494--1441601	31	3.5	31	78	6	76	23	20	23	33	1.97
1447369--1447432	30	2.3	27	89	10	94	50	0	0	50	1.00
1447376--1447447	37	2.0	35	83	8	90	52	1	0	45	1.09
1456732--1457525	280	2.8	282	81	5	871	32	13	6	47	1.68
1459268--1459433	79	2.1	79	96	0	305	39	9	13	37	1.77
1459678--1460145	180	2.6	182	87	0	661	43	13	16	27	1.85
1460055--1460113	20	3.0	19	78	7	64	54	11	13	20	1.70
1462408--1462473	33	2.0	33	84	0	87	28	1	46	22	1.61
1462661--1462748	33	2.7	33	89	3	133	51	0	43	5	1.25
1464299--1464347	19	2.6	19	96	0	89	32	2	10	55	1.45

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