genome.fa.s3744.2.7.7.80.10.50.1000.6.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: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457414

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

This is table  6  of  11  ( 1317 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)
1355766--1355809	16	2.8	16	100	0	88	0	15	45	38	1.47
1359987--1360095	49	2.2	49	80	4	123	40	7	12	39	1.71
1360584--1360628	20	2.2	20	88	4	63	17	13	26	42	1.86
1360584--1360652	21	3.3	21	78	11	70	17	14	24	43	1.86
1362119--1362170	14	3.5	14	70	14	50	57	5	0	36	1.23
1362116--1362176	31	1.9	32	96	3	115	54	11	0	34	1.37
1362157--1362602	54	8.6	49	79	12	255	52	13	0	33	1.43
1362128--1362520	80	4.7	81	75	18	372	52	13	0	33	1.43
1362235--1362278	21	2.1	21	100	0	88	52	13	0	34	1.41
1362236--1362408	76	2.3	75	86	6	260	53	13	0	33	1.40
1362128--1362574	134	3.4	134	92	4	768	52	13	0	34	1.43
1362451--1362619	54	3.1	54	98	0	320	53	11	0	34	1.38
1362500--1362542	22	2.0	22	100	0	86	51	13	0	34	1.42
1362502--1362604	22	4.2	22	70	23	71	54	13	0	32	1.40
1362599--1362632	13	2.5	13	95	4	59	61	0	0	38	0.96
1362554--1362652	22	4.5	22	70	7	83	53	10	0	36	1.35
1362640--1362728	15	6.0	15	89	2	135	47	0	0	52	1.00
1362544--1362750	59	3.3	65	78	12	200	51	5	0	42	1.26
1362640--1362728	29	3.0	30	93	3	153	47	0	0	52	1.00
1362640--1362752	30	3.9	28	87	4	111	47	1	0	50	1.11
1363680--1363730	23	2.2	23	100	0	102	35	7	27	29	1.85
1364085--1364692	251	2.4	247	88	9	861	40	20	12	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366609--1366654	19	2.5	19	85	3	67	17	39	21	21	1.93
1375200--1375236	19	1.9	19	88	0	56	21	32	24	21	1.98
1376430--1376472	20	2.0	20	86	8	59	25	32	2	39	1.69
1379444--1379661	66	3.3	66	92	0	357	35	13	19	31	1.91
1382171--1382213	20	2.2	20	95	0	77	37	23	18	20	1.94
1382207--1382277	20	3.6	19	77	11	72	40	25	14	19	1.89
1382187--1382293	20	5.4	20	74	13	71	37	24	14	23	1.93
1382430--1382467	16	2.5	15	84	12	51	28	5	0	65	1.14
1383166--1383219	24	2.2	24	93	0	90	20	18	20	40	1.91
1385484--1385519	18	2.0	18	88	0	54	55	22	2	19	1.56
1385966--1386088	66	1.9	63	83	8	160	50	17	0	30	1.52
1387381--1387433	21	2.5	21	75	6	54	22	24	33	18	1.97
1387401--1387498	21	4.7	21	71	7	65	23	18	34	23	1.96
1387851--1387950	42	2.4	41	75	8	103	32	36	13	19	1.89
1389565--1389635	20	3.5	20	88	0	97	47	15	21	15	1.82
1390127--1390285	40	4.0	39	78	14	164	19	16	24	39	1.91
1390127--1390285	80	2.0	80	91	0	255	19	16	24	39	1.91
1390127--1390264	20	6.9	20	75	11	122	18	15	25	40	1.90
1390141--1390329	80	2.4	80	83	3	220	22	14	26	36	1.93
1390822--1390881	29	2.0	31	83	6	79	40	11	3	45	1.57
1393297--1393378	29	2.8	29	94	1	137	32	14	9	42	1.79
1398068--1398149	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399278--1399336	31	1.9	31	96	0	109	27	3	11	57	1.50
1400485--1400530	21	2.4	19	82	13	58	28	10	10	50	1.71
1400490--1400539	21	2.4	21	86	0	73	36	10	10	44	1.72
1403971--1404005	2	17.5	2	100	0	70	51	0	0	48	1.00
1409004--1409063	26	2.3	26	97	2	113	38	16	10	35	1.82
1409087--1409132	21	2.1	22	88	4	67	54	2	2	41	1.25
1410389--1410449	20	3.2	20	79	13	83	29	27	19	22	1.98
1410361--1410468	17	5.9	17	75	14	90	25	26	24	23	2.00
1410371--1410471	37	2.7	37	92	1	157	26	26	21	24	2.00
1415476--1415540	20	3.3	20	80	6	80	27	27	20	24	1.99
1415465--1415541	20	4.0	20	78	10	70	24	27	23	24	2.00
1418891--1418925	16	2.1	16	94	5	61	57	5	0	37	1.23
1419111--1419239	3	43.7	3	87	3	190	34	1	3	61	1.21
1419235--1419266	11	2.8	11	95	4	55	56	0	0	43	0.99
1420483--1420531	19	2.7	18	87	9	73	18	4	6	71	1.23
1420571--1420613	11	3.9	11	82	11	52	51	0	0	48	1.00
1422367--1422415	22	2.2	22	85	7	64	40	32	0	26	1.56
1422492--1422545	6	8.7	6	88	8	81	50	0	50	0	1.00
1422584--1422611	14	2.0	14	100	0	56	28	0	0	71	0.86
1422870--1422916	22	2.1	22	84	4	58	55	10	0	34	1.35
1423879--1424423	276	2.0	272	85	5	746	40	14	5	39	1.69
1434289--1434397	49	2.2	49	80	4	123	40	7	12	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434469--1434682	50	4.3	49	74	8	139	41	7	13	38	1.72
1434868--1434919	21	2.5	21	81	6	61	19	17	26	36	1.94
1436464--1436506	21	2.0	21	81	0	50	30	30	25	13	1.94
1436486--1436635	67	2.3	67	89	3	223	27	28	26	18	1.98
1436937--1437008	29	2.5	29	90	0	108	38	9	13	37	1.78
1437022--1437098	30	2.5	30	91	2	118	40	5	23	31	1.76
1437309--1437367	22	2.6	23	94	2	102	18	27	30	23	1.98
1443405--1443447	21	2.0	21	81	0	50	30	30	25	13	1.94
1443427--1443576	67	2.3	67	89	3	223	27	28	26	18	1.98
1443878--1443949	29	2.5	29	90	0	108	38	9	13	37	1.78
1443963--1444039	30	2.5	30	91	2	118	40	5	23	31	1.76
1444250--1444308	22	2.6	23	94	2	102	18	27	30	23	1.98
1445527--1445585	31	1.9	31	96	0	109	42	6	8	42	1.61
1445610--1445652	22	2.0	22	95	0	77	51	11	2	34	1.51
1445612--1445660	22	2.2	22	85	3	62	55	12	2	30	1.48
1445632--1445819	32	6.7	31	68	28	136	51	13	0	34	1.45
1445615--1445924	80	3.9	80	77	13	377	52	13	0	33	1.46
1445600--1445844	134	1.8	134	96	0	454	52	12	0	34	1.45
1445695--1445935	54	4.5	54	80	13	284	51	12	0	34	1.43
1445744--1445786	22	2.0	22	90	0	68	48	11	2	37	1.52
1445803--1445870	26	2.6	26	92	0	118	54	17	0	27	1.43
1445800--1445900	26	4.2	23	75	16	80	54	15	0	29	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445869--1446011	29	4.5	33	82	12	122	49	4	0	45	1.23
1445923--1446011	15	6.0	15	92	2	144	48	0	0	51	1.00
1445923--1446011	29	3.0	30	95	3	162	48	0	0	51	1.00
1445923--1446011	44	2.0	45	91	2	144	48	0	0	51	1.00
1458406--1458442	19	1.9	19	88	0	56	21	32	24	21	1.98
1461993--1462036	18	2.6	17	82	7	54	29	13	22	34	1.93
1462671--1462883	66	3.2	66	90	0	336	37	13	17	31	1.88
1469786--1469998	66	3.2	65	90	2	345	37	13	17	31	1.89
1475320--1475367	2	24.0	2	100	0	96	0	50	0	50	1.00
1477720--1477757	17	2.2	17	100	0	76	10	23	47	18	1.79
1477761--1477858	19	5.1	19	73	10	74	30	24	25	19	1.98
1477759--1477857	9	10.3	9	70	12	63	30	24	27	18	1.98
1485132--1485200	19	3.5	19	75	11	59	34	26	23	15	1.95
1485126--1485185	10	6.3	9	77	9	57	30	28	26	15	1.96
1487005--1487042	19	2.0	19	100	0	76	52	5	31	10	1.58
1487943--1488036	30	3.1	30	75	4	91	17	3	17	62	1.45
1488027--1488082	23	2.4	23	87	0	67	23	16	17	42	1.88
1488053--1488117	34	1.9	34	81	6	78	24	15	16	43	1.87
1490341--1490504	50	3.3	50	76	4	179	40	6	13	39	1.69
1490466--1490583	49	2.4	48	77	1	137	37	8	15	38	1.78
1490768--1490808	21	2.0	21	85	0	55	17	17	24	41	1.89
1494769--1494821	15	3.4	15	78	5	61	47	11	7	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494989--1495041	21	2.5	21	93	0	88	28	28	22	20	1.99
1495237--1495291	13	4.2	13	75	13	58	49	12	3	34	1.59
1495277--1495374	32	3.0	33	94	2	164	45	15	7	31	1.73
1495369--1495408	21	1.9	21	94	0	71	47	7	15	30	1.72
1510758--1510799	17	2.5	17	100	0	84	30	4	16	47	1.67
1515279--1515351	35	2.0	37	82	10	89	47	4	1	46	1.30
1518898--1518947	24	2.1	24	96	0	91	44	12	10	34	1.75
1520503--1520562	31	2.0	31	83	3	77	38	16	5	40	1.71
1520493--1520562	30	2.3	30	80	2	77	32	17	7	42	1.76
1522423--1522463	18	2.3	18	95	0	73	0	12	0	87	0.53

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