genome.fa.s7725.2.7.7.80.10.50.1000.7.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: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3026330

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

This is table  7  of  14  ( 1646 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)
1304684--1304733	20	2.5	20	84	12	68	34	2	0	64	1.05
1304700--1304761	29	2.2	28	86	11	90	37	1	0	61	1.06
1304673--1304744	3	24.3	3	76	18	62	34	1	0	63	1.03
1306113--1306165	27	2.0	27	88	0	79	24	1	5	67	1.22
1306211--1306253	2	22.0	2	90	4	70	53	0	0	46	1.00
1306446--1306495	20	2.3	22	80	13	59	46	2	0	52	1.12
1307501--1307529	5	5.8	5	100	0	58	17	0	0	82	0.66
1308646--1308707	26	2.4	25	78	5	70	16	8	9	66	1.44
1310178--1310218	15	2.7	15	96	0	73	43	7	29	19	1.78
1314277--1314513	75	3.2	75	84	1	305	31	16	22	29	1.95
1316274--1316608	113	3.0	113	91	0	537	37	15	18	27	1.92
1316981--1317039	26	2.3	26	88	5	84	37	1	0	61	1.07
1317907--1317935	15	1.9	15	100	0	58	55	0	37	6	1.27
1318412--1318462	27	2.0	25	88	7	75	23	1	5	68	1.22
1318508--1318545	2	19.0	2	94	0	67	52	0	0	47	1.00
1318740--1318789	20	2.3	22	80	13	59	46	2	0	52	1.12
1320638--1320691	29	1.9	27	88	7	81	55	0	0	44	0.99
1320632--1320681	25	2.0	25	84	0	64	56	2	0	42	1.11
1320699--1320769	31	2.3	32	80	7	83	45	7	4	43	1.50
1321870--1322053	60	3.1	59	76	10	160	30	23	5	39	1.79
1322879--1322937	16	3.6	17	84	6	77	50	5	13	30	1.63
1324490--1324530	14	2.9	15	82	17	52	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324489--1324530	15	2.8	15	76	23	52	50	0	0	50	1.00
1340265--1340810	276	2.0	269	97	2	1029	35	23	12	28	1.91
1343893--1343966	6	12.3	6	100	0	148	33	50	16	0	1.45
1351138--1351169	16	2.0	16	93	0	55	53	0	0	46	1.00
1351210--1351246	15	2.4	16	86	13	51	32	2	5	59	1.34
1351710--1351967	128	2.0	126	90	1	408	36	12	14	36	1.84
1352343--1352418	35	2.2	35	92	0	125	35	1	23	39	1.63
1353891--1353920	6	5.0	6	91	0	51	80	0	3	16	0.85
1357687--1357711	2	12.5	2	100	0	50	52	0	0	48	1.00
1358467--1358579	60	1.9	60	81	3	138	22	21	35	21	1.96
1362115--1362176	20	3.1	20	75	9	63	69	6	1	22	1.20
1362114--1362238	53	2.3	56	78	13	136	66	8	3	22	1.33
1362206--1362375	45	3.7	45	92	3	261	68	6	4	20	1.29
1362777--1362829	21	2.5	21	96	0	97	24	11	30	33	1.90
1363398--1363433	2	18.0	2	100	0	72	50	0	0	50	1.00
1371945--1371987	4	10.8	4	94	0	59	41	25	6	25	1.80
1379978--1380052	9	8.7	9	78	8	75	34	41	1	22	1.63
1379979--1380049	6	11.8	6	84	0	70	35	42	1	21	1.62
1379979--1380034	24	2.3	24	93	0	94	35	41	1	21	1.64
1379978--1380031	3	18.0	3	80	0	63	35	38	1	24	1.66
1381995--1382033	20	2.0	20	94	0	69	58	7	0	33	1.26
1381988--1382089	17	5.7	18	73	17	72	59	4	1	33	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381982--1382096	50	2.3	50	80	5	144	62	4	1	31	1.25
1385637--1385662	9	2.9	9	100	0	52	76	0	11	11	1.01
1398960--1399039	40	2.0	40	100	0	160	27	22	32	17	1.96
1400545--1400577	17	2.0	17	94	5	59	42	21	0	36	1.53
1410316--1410354	2	20.5	2	89	10	64	46	0	0	53	1.00
1410345--1410386	21	2.0	21	86	13	59	30	2	0	66	1.04
1410379--1410483	39	2.7	39	78	20	121	35	16	1	46	1.58
1412424--1412589	54	3.2	52	86	5	207	44	0	4	51	1.21
1412508--1412608	22	4.5	22	71	7	94	38	0	9	51	1.35
1412422--1412563	15	9.5	15	77	19	136	45	0	2	52	1.12
1412543--1412726	32	6.4	32	74	23	192	35	0	10	52	1.41
1412543--1412838	54	5.4	54	80	10	377	34	0	11	53	1.41
1412620--1412662	22	2.0	22	100	0	86	34	0	13	51	1.42
1412651--1412704	14	3.6	14	72	18	54	37	1	5	55	1.34
1412786--1412828	22	2.0	22	100	0	86	34	0	13	51	1.42
1412853--1412911	31	1.9	31	92	0	100	42	10	6	40	1.65
1420106--1420161	29	1.9	29	100	0	112	25	14	12	48	1.78
1424600--1424658	29	2.0	29	100	0	118	23	13	13	49	1.78
1434699--1434793	24	3.8	24	71	9	75	48	3	1	47	1.24
1434902--1434957	23	2.4	23	74	14	60	55	1	0	42	1.10
1434914--1434964	23	2.3	23	83	10	61	47	1	0	50	1.12
1435109--1435154	22	2.0	23	87	4	67	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435870--1435992	33	3.8	33	74	19	132	41	10	16	31	1.82
1440007--1440050	23	1.9	23	81	9	54	79	6	11	2	1.01
1440214--1440242	11	2.5	12	88	11	51	55	20	17	6	1.65
1440728--1440777	21	2.3	22	93	3	84	34	28	12	26	1.92
1441625--1441728	36	2.9	35	88	2	145	25	22	14	38	1.91
1441660--1441993	101	3.3	101	91	2	548	29	20	13	37	1.91
1441845--1441926	37	2.3	36	85	6	105	24	19	14	41	1.89
1441630--1441926	36	8.7	34	66	21	131	28	20	13	37	1.91
1441780--1442091	164	1.9	164	91	4	513	30	20	12	36	1.90
1441900--1442057	65	2.5	65	93	2	275	30	21	13	34	1.92
1442831--1443597	105	7.3	105	88	3	1026	34	26	16	22	1.96
1444135--1444257	33	3.8	34	70	22	111	41	10	16	31	1.82
1444775--1444836	16	3.9	15	79	12	61	25	4	1	67	1.19
1444740--1444814	23	3.0	23	77	16	62	29	6	1	62	1.29
1444774--1444836	24	2.5	24	80	17	67	25	4	1	68	1.18
1448964--1449558	297	2.0	297	99	0	1181	38	12	12	36	1.80
1454273--1454345	37	2.0	37	97	0	137	38	20	13	27	1.90
1454572--1454749	60	3.0	60	80	5	227	30	23	5	40	1.76
1454888--1454985	30	3.3	28	69	23	74	30	4	30	34	1.76
1454938--1455021	27	3.2	26	67	29	68	32	4	29	33	1.78
1454997--1455126	59	2.2	60	80	1	145	40	4	18	36	1.71
1456594--1456914	103	3.1	103	99	0	633	26	13	23	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456931--1456993	23	2.7	23	87	4	92	20	26	26	25	1.99
1463778--1463832	22	2.5	22	84	0	74	23	30	1	43	1.64
1466639--1466683	21	2.1	21	91	0	72	26	26	22	24	2.00
1467386--1467436	20	2.5	20	77	3	57	33	13	21	31	1.92
1471129--1471171	21	2.2	19	88	12	61	34	16	23	25	1.95
1473936--1473960	13	1.9	13	100	0	50	64	0	0	36	0.94
1484476--1484531	18	3.1	18	84	5	69	30	17	37	14	1.90
1485638--1485693	23	2.4	23	90	0	85	26	19	12	41	1.87
1485650--1485703	23	2.3	23	96	0	99	27	16	12	42	1.85
1485654--1485720	23	3.0	23	86	2	73	26	14	13	44	1.83
1486692--1486803	48	2.3	51	84	7	142	40	1	6	51	1.37
1487587--1487622	16	2.2	16	100	0	72	77	11	5	5	1.10
1487587--1487644	16	3.7	16	81	9	57	75	10	10	3	1.15
1491161--1491222	31	2.0	31	84	6	81	16	6	0	77	0.97
1493079--1493127	19	2.7	17	84	9	53	26	18	28	26	1.98
1493163--1493262	46	2.2	46	88	0	146	27	20	19	34	1.96
1493100--1493224	64	1.9	64	85	4	162	27	20	23	28	1.99
1493184--1493275	46	2.0	46	100	0	184	23	17	21	36	1.94
1494092--1494765	347	1.9	348	82	5	835	37	9	11	40	1.75
1495333--1495493	4	40.2	4	92	0	214	42	24	7	24	1.80
1503989--1504144	64	2.4	65	82	9	176	34	19	17	27	1.95
1504369--1504426	25	2.3	25	79	8	64	36	12	10	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504723--1504785	23	2.7	23	82	4	83	19	22	26	31	1.97
1505741--1505894	31	5.0	31	93	1	256	37	20	20	22	1.95
1506761--1506805	21	2.1	21	87	0	63	15	24	28	31	1.96
1509766--1509919	31	5.0	31	93	1	256	37	20	20	22	1.95
1510784--1510828	21	2.1	21	87	0	63	15	24	28	31	1.96
1517374--1517529	64	2.4	65	84	9	185	34	19	17	27	1.95
1517754--1517811	25	2.3	25	79	8	64	36	12	10	41	1.76
1518107--1518175	23	3.0	23	85	4	86	20	23	26	30	1.98
1520636--1520673	19	2.0	20	89	5	60	34	7	10	47	1.67
1528814--1528852	2	20.0	2	94	5	71	51	0	0	48	1.00

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