genome.fa.s9460.2.7.7.80.10.50.1000.8.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

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

This is table  8  of  14  ( 1601 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)
1312921--1312954	9	3.9	9	84	7	52	61	2	0	35	1.11
1312917--1312955	17	2.4	17	95	4	71	61	5	0	33	1.18
1312933--1312979	24	1.9	25	83	12	62	65	4	0	29	1.11
1315225--1315288	29	2.2	29	94	0	110	45	7	9	37	1.66
1315256--1315549	93	3.1	95	89	5	423	38	11	12	37	1.79
1315617--1315675	29	2.0	29	93	0	100	32	1	11	54	1.47
1315743--1315785	20	2.2	20	86	0	59	51	2	2	44	1.27
1318330--1319663	701	1.9	703	83	4	1760	44	13	9	32	1.77
1318330--1319663	467	2.8	469	83	4	1593	44	13	9	32	1.77
1318332--1319688	235	5.8	233	83	6	1456	44	13	9	32	1.76
1335051--1335102	6	8.7	6	100	0	104	48	0	0	51	1.00
1343248--1343289	20	2.1	20	95	0	75	26	35	0	38	1.57
1343295--1343328	17	1.9	18	88	5	52	29	0	5	64	1.17
1344029--1344067	20	2.0	20	89	0	60	38	10	17	33	1.84
1351899--1351925	11	2.5	11	100	0	54	92	0	7	0	0.38
1355620--1355651	15	2.1	15	94	0	55	31	0	37	31	1.58
1359349--1359473	60	2.1	60	80	5	139	46	9	4	39	1.58
1363871--1363929	25	2.4	25	88	5	84	13	8	30	47	1.73
1370169--1370218	17	2.5	21	69	30	54	34	4	8	54	1.49
1370179--1370214	17	2.1	17	100	0	72	36	5	5	52	1.48
1381406--1381441	18	2.0	18	94	0	63	61	2	13	22	1.46
1384101--1384146	20	2.2	22	84	7	60	50	21	13	15	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384629--1384668	14	2.9	14	100	0	80	27	0	30	42	1.56
1384780--1384929	60	2.5	60	80	7	160	32	19	4	44	1.69
1389419--1389502	34	2.5	33	83	12	100	61	15	2	20	1.44
1391707--1391739	16	1.9	17	88	11	50	60	3	0	36	1.12
1392529--1392573	20	2.2	21	84	15	67	37	13	17	31	1.89
1392536--1392579	20	2.2	20	84	8	54	38	20	15	25	1.92
1392576--1392618	20	2.2	20	95	0	77	48	25	9	16	1.75
1393147--1393194	20	2.4	20	92	0	78	47	25	18	8	1.76
1393191--1393294	20	5.2	20	82	3	129	11	16	23	49	1.78
1393191--1393305	41	2.9	40	84	3	142	13	15	21	49	1.78
1394618--1394661	22	2.0	22	100	0	88	45	18	9	27	1.79
1394636--1395402	383	2.0	383	99	0	1507	25	27	19	27	1.99
1395875--1395929	21	2.6	21	82	0	65	21	30	23	23	1.99
1397895--1397980	34	2.5	34	90	5	138	22	24	22	31	1.98
1397963--1398060	20	4.9	20	77	5	108	36	20	18	24	1.94
1400645--1400698	24	2.2	24	86	0	72	42	16	18	22	1.89
1401882--1401907	2	13.0	2	100	0	52	50	0	0	50	1.00
1406482--1406536	2	27.5	2	100	0	110	50	0	0	49	1.00
1407219--1407318	33	2.9	33	83	8	112	16	10	30	44	1.80
1407219--1407332	38	3.2	35	77	15	108	16	9	31	42	1.81
1407924--1407971	18	2.8	17	78	6	51	29	27	6	37	1.81
1408265--1408290	13	2.0	13	100	0	52	15	15	15	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413311--1413414	52	2.0	52	98	0	199	33	27	3	34	1.75
1420154--1420239	39	2.2	39	97	0	163	32	8	5	53	1.54
1429788--1429860	23	3.2	23	82	0	92	26	17	15	41	1.89
1432384--1432426	20	2.2	20	86	0	59	34	20	13	30	1.92
1435045--1435084	13	3.0	13	81	3	53	62	0	25	12	1.30
1442732--1442774	20	2.2	20	86	0	59	34	20	13	30	1.92
1444577--1444621	2	22.5	2	100	0	90	51	0	0	48	1.00
1445261--1445350	31	2.9	31	91	0	144	26	25	13	34	1.93
1451570--1451640	3	23.0	3	77	5	61	40	2	0	56	1.14
1451577--1451641	19	3.5	19	80	4	69	43	3	0	53	1.16
1459432--1459935	253	2.0	251	99	0	990	31	20	22	25	1.98
1464290--1464322	10	3.4	10	91	4	50	84	0	12	3	0.72
1464648--1464693	16	2.6	18	87	12	69	32	8	4	54	1.51
1464648--1464693	19	2.6	17	90	10	67	32	8	4	54	1.51
1465353--1465653	82	3.7	82	97	0	548	24	13	22	38	1.91
1466376--1467141	113	6.8	113	91	3	1224	38	15	19	26	1.92
1467407--1467473	19	3.4	19	78	8	62	38	2	4	53	1.36
1470307--1470363	24	2.3	25	77	17	66	43	0	0	56	0.99
1470392--1470425	12	2.8	12	90	4	50	11	17	50	20	1.77
1471908--1471991	33	2.6	32	87	7	109	32	23	16	27	1.96
1471927--1471991	33	1.9	34	93	3	114	32	21	15	30	1.94
1475083--1475112	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475300--1475335	18	2.1	18	89	5	56	66	2	5	25	1.27
1475386--1475457	35	2.1	35	97	0	135	27	19	11	41	1.85
1477873--1477960	33	2.8	31	84	6	106	35	22	14	27	1.93
1483857--1483907	17	3.1	17	94	5	95	58	0	17	23	1.38
1483858--1483907	16	3.1	16	97	2	91	58	0	18	24	1.40
1489474--1489512	18	2.1	19	85	4	53	69	0	5	25	1.09
1490092--1490116	11	2.3	11	100	0	50	32	8	24	36	1.84
1490478--1490528	20	2.5	19	84	12	66	56	13	11	17	1.66
1490270--1490742	182	2.6	183	87	1	675	42	13	16	27	1.85
1490664--1490701	20	1.9	20	84	10	51	55	7	15	21	1.66
1492939--1493003	21	3.1	21	90	0	94	43	10	29	16	1.82
1493037--1493102	33	2.0	33	90	0	105	28	0	48	22	1.51
1493288--1493328	21	2.0	21	90	0	64	56	0	41	2	1.13
1494289--1494313	4	6.2	4	100	0	50	24	0	28	48	1.52
1494893--1494941	19	2.5	20	90	9	84	34	2	10	53	1.47
1495054--1496551	200	7.5	200	96	0	2699	36	15	17	30	1.91
1496076--1496115	21	2.1	19	86	13	55	42	15	15	27	1.86
1497478--1498416	183	5.1	183	95	0	1675	35	14	16	33	1.89
1501261--1501333	23	3.2	23	92	0	119	34	5	21	38	1.77
1501689--1501734	23	2.0	23	87	8	67	39	10	8	41	1.71
1501752--1501824	23	3.2	23	92	0	119	34	5	21	38	1.77
1502179--1502223	22	2.0	22	86	0	63	40	8	11	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502241--1502313	23	3.2	23	86	0	101	32	5	20	41	1.75
1500917--1502717	490	3.7	490	96	1	3265	41	7	10	40	1.67
1500931--1502721	981	1.8	973	95	1	2964	41	7	10	40	1.67
1511086--1511148	23	2.7	23	80	5	63	46	1	1	50	1.20
1511124--1511176	20	2.7	20	75	16	56	49	1	0	49	1.12
1511132--1511278	29	5.0	30	73	17	105	48	1	0	48	1.14
1511249--1511292	22	2.0	23	86	4	63	54	0	0	45	0.99
1511470--1511579	42	2.6	42	94	0	184	50	18	14	17	1.79
1513602--1513666	21	3.4	21	66	24	61	29	4	18	47	1.68
1513595--1513674	36	2.2	36	93	2	135	31	5	18	45	1.71
1513779--1513808	7	4.3	7	95	0	51	43	36	0	20	1.52
1518189--1518249	21	3.2	21	63	26	53	31	3	16	49	1.62
1518188--1518267	36	2.2	36	91	2	126	31	3	18	46	1.67
1518746--1518830	34	2.5	34	96	0	152	38	0	1	60	1.05
1521573--1521646	2	37.0	2	93	5	123	47	0	2	50	1.15
1522534--1522579	2	23.0	2	100	0	92	50	0	0	50	1.00
1523354--1523478	31	4.0	31	93	2	198	38	23	18	20	1.93
1527558--1527713	31	5.0	31	93	1	251	39	23	17	19	1.93
1530394--1530450	17	3.3	18	80	11	66	64	1	0	33	1.04
1538393--1538437	14	3.1	15	81	6	58	53	0	8	37	1.32
1538380--1538437	29	2.0	29	90	6	91	51	1	10	36	1.46
1538380--1538431	14	3.6	15	79	7	63	51	1	11	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1539834--1539887	26	2.1	26	96	0	99	46	11	5	37	1.63
1555578--1555615	18	2.1	18	85	9	51	42	15	18	23	1.89
1563391--1563447	26	2.4	24	85	11	73	33	19	1	45	1.61
1563765--1563800	18	2.0	18	94	0	63	52	16	2	27	1.57
1564394--1565521	632	1.8	619	83	4	1503	38	11	13	36	1.80
1565859--1565907	23	2.1	23	88	0	71	26	10	6	57	1.55
1565859--1565907	11	4.2	12	79	7	57	26	10	6	57	1.55
1574608--1574705	32	3.1	32	96	0	178	38	22	17	21	1.93
1581627--1581712	23	3.7	23	74	20	88	19	25	25	29	1.99
1582251--1582295	21	2.1	22	87	4	65	20	26	28	24	1.99

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