genome.fa.s8709.2.7.7.80.10.50.1000.7.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: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030657

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

This is table  7  of  15  ( 1745 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)
1337013--1337147	41	3.4	40	79	8	170	48	5	2	43	1.40
1337059--1337191	52	2.6	50	83	10	162	47	5	3	44	1.41
1337161--1337266	37	2.9	36	80	14	101	45	10	3	40	1.56
1337145--1337266	36	3.4	35	77	16	117	44	9	3	43	1.52
1338289--1338640	102	3.5	102	89	0	526	26	14	32	27	1.95
1344249--1344314	29	2.3	29	94	0	114	21	18	36	24	1.95
1344316--1344376	32	1.9	32	89	0	95	32	8	21	37	1.83
1349396--1349448	15	3.5	15	94	0	97	7	35	9	47	1.64
1356036--1356081	24	1.9	24	86	0	65	17	19	6	56	1.62
1359655--1359710	28	2.0	28	100	0	112	14	28	14	42	1.84
1364690--1364737	21	2.3	21	85	0	60	25	39	12	22	1.89
1364711--1364847	63	2.2	63	79	7	145	20	35	21	21	1.96
1364747--1364848	21	4.9	21	92	2	152	18	35	24	21	1.96
1365378--1365474	33	2.9	34	85	3	133	55	4	3	37	1.35
1365376--1365481	34	3.2	33	82	8	133	54	4	2	37	1.36
1365859--1366462	126	4.8	126	98	0	1165	32	20	25	21	1.97
1366530--1366570	8	5.2	8	82	5	57	36	29	0	34	1.58
1369567--1369606	13	3.2	13	89	7	64	45	0	0	55	0.99
1373414--1373457	20	2.2	20	100	0	88	25	0	31	43	1.55
1373421--1373464	20	2.2	20	87	0	61	34	0	25	40	1.56
1378291--1378320	13	2.2	14	94	5	53	13	6	6	73	1.24
1385360--1385468	55	1.9	57	83	3	141	51	11	22	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385450--1385510	7	9.3	7	82	10	76	81	0	18	0	0.68
1385451--1385510	19	3.2	19	88	4	86	81	0	18	0	0.69
1385450--1385510	26	2.3	26	88	5	97	81	0	18	0	0.68
1391130--1391168	2	19.5	2	94	0	60	46	0	53	0	1.00
1392379--1392432	21	2.6	21	90	0	90	20	22	18	38	1.93
1392456--1392522	20	3.3	20	89	0	98	37	22	16	23	1.94
1392516--1392621	20	5.3	20	75	10	83	43	21	13	21	1.86
1392496--1392664	60	2.8	60	83	2	205	40	20	14	23	1.90
1392528--1392664	20	6.8	20	72	11	91	41	19	14	24	1.89
1392779--1392826	22	2.2	22	84	0	60	22	41	12	22	1.88
1393171--1393231	20	3.3	20	68	25	62	49	26	14	9	1.75
1393186--1393219	14	2.4	14	85	0	50	50	26	14	8	1.72
1393792--1393842	22	2.3	22	82	0	66	21	41	13	23	1.89
1394199--1394232	14	2.4	14	85	0	50	50	26	14	8	1.72
1396363--1396485	42	2.9	42	79	4	140	22	37	18	21	1.94
1396368--1396485	21	5.6	21	73	4	94	22	37	19	20	1.94
1397813--1397988	66	2.6	65	87	8	239	27	2	16	53	1.55
1398081--1398129	20	2.5	20	75	0	62	28	22	26	22	1.99
1399131--1399167	18	2.1	18	89	0	56	51	10	5	32	1.60
1399553--1399602	25	2.0	25	96	0	91	44	22	8	26	1.80
1400034--1400069	18	2.0	18	94	0	63	16	2	25	55	1.55
1402331--1402384	24	2.2	24	90	0	81	40	20	16	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403125--1403162	16	2.5	15	84	12	51	65	0	5	28	1.14
1403315--1403387	19	3.7	20	81	7	60	30	10	21	36	1.88
1403335--1403371	19	1.9	19	94	0	65	32	10	18	37	1.86
1403419--1403481	20	3.2	20	95	0	108	23	19	23	33	1.97
1403473--1403522	20	2.5	20	80	6	57	24	14	34	28	1.93
1403510--1403565	20	2.8	20	97	0	103	21	19	17	41	1.91
1409966--1410055	27	3.5	26	73	21	84	48	2	0	48	1.13
1409968--1410042	23	3.1	22	67	22	53	49	2	0	48	1.15
1409948--1410069	50	2.4	50	73	10	115	46	2	0	50	1.14
1410020--1410189	89	1.9	86	81	11	200	45	0	3	50	1.18
1410382--1410428	22	2.1	23	88	4	69	53	0	2	44	1.12
1410390--1410433	22	2.0	22	82	8	54	54	0	2	43	1.12
1410626--1410717	42	2.2	42	90	0	139	17	15	20	46	1.84
1410918--1410978	23	2.7	22	78	11	61	44	1	0	54	1.10
1410926--1410989	22	2.9	22	82	11	69	45	1	0	53	1.10
1410943--1410989	22	2.1	23	92	4	78	44	0	0	55	0.99
1410979--1411027	23	2.1	23	85	7	64	57	2	0	40	1.10
1411171--1411215	23	2.0	23	81	0	54	51	2	4	42	1.34
1411507--1411560	14	3.8	14	82	4	72	33	20	5	40	1.76
1423457--1423487	2	15.5	2	100	0	62	51	0	0	48	1.00
1425372--1425407	18	2.0	18	100	0	72	27	11	0	61	1.30
1427981--1428018	17	2.2	18	90	4	60	28	0	2	68	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427988--1428065	12	6.5	12	71	11	52	25	0	5	69	1.09
1437439--1437476	13	2.7	14	84	12	51	73	2	21	2	1.07
1438772--1438866	20	5.1	20	78	18	89	18	35	28	16	1.93
1438805--1438882	34	2.3	35	93	2	131	17	35	25	20	1.95
1438818--1438881	15	4.0	15	72	21	58	18	32	26	21	1.97
1438994--1439035	21	2.0	21	90	0	66	26	21	26	26	1.99
1441664--1441705	21	2.0	21	95	0	75	23	21	28	26	1.99
1443689--1443737	3	16.3	3	78	0	53	32	6	30	30	1.82
1447538--1447571	16	2.0	16	88	11	50	67	0	0	32	0.91
1448090--1448133	22	2.0	22	100	0	88	50	22	9	18	1.75
1456211--1456236	13	2.0	13	100	0	52	38	0	7	53	1.30
1456656--1456695	16	2.5	16	88	8	55	32	2	0	65	1.06
1459764--1459793	14	2.1	14	93	0	51	43	0	16	40	1.48
1460143--1460231	33	2.7	33	96	0	160	39	14	10	35	1.80
1460406--1460584	16	10.8	16	69	10	99	12	12	25	48	1.77
1460501--1460586	38	2.3	38	81	2	93	13	12	24	48	1.78
1463828--1463870	22	2.0	22	85	0	59	32	9	18	39	1.83
1464671--1464877	65	3.2	64	79	11	226	31	22	18	27	1.97
1465058--1465103	24	2.0	24	87	12	69	52	26	2	19	1.58
1467026--1467105	23	3.6	22	77	5	90	25	25	25	25	2.00
1467030--1467124	44	2.2	42	85	7	120	25	22	25	27	2.00
1467026--1467124	21	4.7	20	75	10	74	24	22	26	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1471585--1471634	17	3.1	17	68	26	54	52	22	6	20	1.68
1474213--1474261	19	2.6	19	90	9	75	34	18	22	24	1.96
1474213--1474389	65	2.8	64	80	9	191	29	18	23	28	1.98
1475794--1475833	20	2.1	19	95	4	71	22	25	15	37	1.93
1479561--1479596	17	2.1	17	100	0	72	22	5	33	38	1.77
1482347--1482392	15	3.1	15	80	0	56	32	4	23	39	1.75
1482551--1482652	23	4.3	23	70	6	71	23	21	22	32	1.98
1482551--1482622	24	3.0	23	76	6	72	26	22	22	29	1.99
1487463--1487512	22	2.3	22	100	0	100	38	10	24	28	1.87
1488079--1488152	32	2.3	32	97	0	139	44	1	20	33	1.60
1488302--1488388	24	3.7	23	77	10	81	22	18	27	31	1.97
1488296--1488372	23	3.3	22	77	8	73	23	19	25	31	1.98
1488385--1488453	33	2.1	33	91	0	111	23	10	30	36	1.88
1500422--1500466	16	2.7	17	82	3	56	35	2	0	62	1.08
1500424--1500471	16	3.0	16	81	6	53	31	2	0	66	1.03
1506654--1506830	97	1.8	97	92	2	302	51	7	3	37	1.47
1507831--1507875	20	2.2	21	92	4	74	42	0	0	57	0.98
1507831--1507879	10	4.8	10	84	2	62	42	0	0	57	0.99
1507836--1507885	20	2.6	19	84	12	66	40	2	0	58	1.10
1507883--1507982	33	3.1	32	77	7	96	53	3	1	43	1.23
1508488--1508527	10	3.8	11	83	9	57	22	5	5	67	1.30
1508488--1508538	21	2.4	21	87	6	68	23	3	3	68	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508482--1508539	10	5.5	10	81	8	53	24	3	3	68	1.20
1509320--1509391	29	2.5	29	100	0	144	27	15	33	23	1.95
1512864--1513013	75	2.0	75	97	0	282	36	16	16	32	1.90
1515773--1515827	23	2.4	24	85	14	80	16	16	10	56	1.67
1520499--1520543	22	2.2	20	84	8	54	40	11	26	22	1.87
1521089--1521181	24	4.0	24	77	6	93	22	22	23	31	1.99
1523275--1523313	12	3.2	12	85	0	60	53	2	41	2	1.28
1527281--1527401	65	1.9	64	86	5	172	32	23	14	28	1.95
1527281--1527419	65	2.2	64	83	6	165	30	24	15	28	1.96
1529548--1529617	29	2.4	29	95	2	124	35	8	8	47	1.65

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