genome.fa.s9633.2.7.7.80.10.50.1000.8.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

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

This is table  8  of  13  ( 1552 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)
1389308--1389417	36	3.1	36	80	5	134	39	15	21	23	1.92
1389317--1389406	34	2.6	35	87	3	119	43	17	20	18	1.88
1389475--1389653	36	5.1	36	68	17	117	37	12	19	30	1.89
1389573--1389653	37	2.2	36	84	2	99	39	11	19	29	1.86
1389459--1389690	102	2.3	101	80	5	245	36	11	18	33	1.87
1389838--1390160	106	3.0	106	89	0	457	23	19	23	33	1.97
1390737--1390823	31	2.7	31	82	3	102	34	21	16	27	1.95
1391912--1391964	13	4.2	12	76	11	52	3	18	3	73	1.14
1394534--1394632	13	7.3	13	68	11	56	74	0	3	22	0.95
1394526--1394663	18	8.0	18	68	20	64	70	0	4	24	1.10
1394717--1394793	23	3.3	23	73	20	61	67	0	5	27	1.12
1395204--1395246	17	2.5	17	96	0	77	34	27	11	25	1.91
1397485--1397543	18	3.3	18	95	0	109	22	22	27	28	1.99
1407365--1407390	2	13.0	2	100	0	52	50	0	0	50	1.00
1410022--1410097	11	6.5	11	68	25	50	63	3	3	28	1.30
1410067--1410126	15	3.8	17	73	13	65	70	0	6	23	1.11
1410072--1410115	19	2.3	19	84	7	54	70	0	4	25	1.06
1410350--1410391	18	2.3	18	100	0	84	35	11	9	42	1.74
1411507--1411571	3	21.0	3	81	6	76	60	0	1	38	1.07
1411500--1411571	24	3.0	23	86	11	92	58	0	1	40	1.07
1411699--1411885	76	2.5	76	91	1	304	34	21	20	23	1.97
1412423--1412467	23	1.9	23	82	13	56	15	24	6	53	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412295--1412777	113	4.3	111	86	5	623	28	18	14	37	1.91
1412295--1412777	226	2.1	224	88	3	718	28	18	14	37	1.91
1412686--1412851	73	2.3	73	85	4	219	33	16	16	33	1.91
1412459--1413076	299	2.1	299	95	1	1107	30	17	15	36	1.92
1412758--1413151	113	3.5	113	86	3	569	29	17	15	37	1.90
1413555--1413609	22	2.5	22	85	11	85	36	14	12	36	1.84
1413946--1414114	54	3.2	54	87	2	227	24	21	15	38	1.92
1422014--1422067	14	3.8	14	82	9	56	50	9	14	25	1.73
1424573--1424648	11	6.5	11	68	25	50	63	3	3	28	1.30
1424618--1424677	15	3.8	17	73	13	65	70	0	6	23	1.11
1424623--1424666	19	2.3	19	84	7	54	70	0	4	25	1.06
1426042--1426106	3	21.0	3	81	6	76	60	0	1	38	1.07
1426035--1426106	24	3.0	23	86	11	92	58	0	1	40	1.07
1426318--1426360	22	2.0	21	86	8	61	74	0	0	25	0.82
1435450--1435537	20	4.4	20	86	2	115	36	21	20	21	1.95
1435450--1435535	40	2.2	40	89	4	129	37	20	19	22	1.95
1435409--1435556	60	2.4	61	76	11	160	31	22	18	27	1.97
1436397--1436450	24	2.2	24	90	0	81	22	18	18	40	1.91
1438791--1438884	20	4.7	20	84	2	127	36	24	20	19	1.95
1438793--1438884	40	2.3	40	88	3	141	36	25	19	18	1.94
1438889--1438976	19	4.8	19	80	16	114	44	18	22	14	1.86
1438856--1438976	53	2.3	53	89	2	190	42	19	23	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439069--1439105	14	2.6	14	86	0	56	48	21	0	29	1.50
1440503--1440547	18	2.3	18	81	11	54	26	11	40	22	1.87
1441048--1441100	20	2.7	20	96	0	97	39	22	20	16	1.92
1441056--1441116	20	3.0	20	90	0	77	37	18	19	24	1.94
1441149--1441227	19	4.3	19	77	6	65	12	17	24	45	1.83
1441178--1441227	17	2.8	17	81	6	64	12	22	20	46	1.83
1441331--1441690	94	3.8	94	92	1	596	47	18	12	21	1.82
1441540--1441572	17	1.9	17	88	11	50	45	15	15	24	1.84
1443370--1443425	20	2.8	20	80	20	80	39	19	25	16	1.91
1443361--1443492	19	7.1	19	78	11	121	44	18	22	13	1.85
1443361--1443487	38	3.4	37	78	12	136	45	18	22	13	1.84
1443490--1443568	33	2.4	33	91	0	122	11	21	20	46	1.81
1443552--1443623	20	3.5	20	84	5	92	12	16	19	51	1.76
1444184--1444397	20	10.6	20	75	6	162	20	16	23	39	1.91
1444186--1444392	41	5.1	41	85	1	274	19	15	23	40	1.91
1444186--1444438	81	3.1	82	82	4	291	20	16	23	39	1.92
1444389--1444437	20	2.5	20	82	0	53	20	20	24	34	1.96
1444404--1444499	42	2.3	42	77	8	99	23	20	19	35	1.96
1447088--1447121	16	2.1	16	94	0	59	17	38	0	44	1.49
1447813--1447852	21	1.9	21	89	0	62	35	30	12	22	1.91
1447834--1447958	64	1.9	65	85	1	171	34	22	14	28	1.93
1455634--1455673	21	1.9	21	94	0	71	32	30	15	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455634--1455798	64	2.5	64	82	2	195	33	24	16	24	1.95
1455634--1455843	64	3.2	63	79	7	172	33	24	15	26	1.95
1456761--1456824	23	2.8	23	90	0	101	26	26	28	18	1.98
1456840--1457057	103	2.1	103	96	0	400	37	23	13	25	1.91
1457796--1458016	64	3.5	64	83	7	245	27	19	19	33	1.96
1462752--1462815	23	2.8	23	90	0	101	26	26	28	18	1.98
1462831--1463048	103	2.1	103	97	0	409	36	23	13	25	1.92
1463785--1464005	64	3.5	64	83	7	245	27	19	19	33	1.96
1478700--1479208	59	8.6	59	80	8	468	35	10	23	30	1.88
1478761--1478859	31	3.3	31	64	13	89	32	11	28	28	1.91
1478733--1478828	28	3.3	28	64	13	77	30	12	27	30	1.93
1478709--1479296	118	5.0	118	85	5	649	35	10	23	30	1.89
1478709--1479295	177	3.3	176	80	8	592	35	10	23	30	1.89
1478709--1479306	59	10.1	59	79	9	447	35	10	23	29	1.89
1479355--1479543	44	4.3	44	93	2	308	38	6	22	33	1.79
1479921--1479980	30	2.0	30	96	0	111	25	16	25	33	1.96
1488313--1488359	24	2.0	23	83	4	58	25	10	4	59	1.49
1490670--1490734	29	2.2	29	83	8	87	29	23	3	44	1.68
1490861--1490963	40	2.6	39	80	11	102	24	11	2	61	1.44
1491720--1491819	24	4.2	24	72	0	74	46	17	15	22	1.84
1492964--1492999	18	2.0	18	88	0	54	22	22	5	50	1.70
1494303--1494334	7	4.4	7	92	7	55	25	28	34	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494304--1494350	15	3.3	15	91	5	71	21	25	38	14	1.92
1494332--1494408	18	4.6	18	81	15	110	11	20	50	16	1.76
1494326--1494404	31	2.5	31	95	0	149	13	21	48	16	1.81
1494304--1494350	8	6.5	8	79	20	59	21	25	38	14	1.92
1494311--1494386	13	5.3	13	77	17	71	17	22	44	15	1.86
1496536--1496638	24	4.3	24	72	0	80	46	16	15	21	1.84
1497780--1497815	18	2.0	18	88	0	54	22	22	5	50	1.70
1499119--1499150	7	4.4	7	92	7	55	25	28	34	12	1.92
1499120--1499166	15	3.3	15	91	5	71	21	25	38	14	1.92
1499148--1499224	18	4.6	18	81	15	110	11	20	50	16	1.76
1499142--1499220	31	2.5	31	95	0	149	13	21	48	16	1.81
1499120--1499166	8	6.5	8	79	20	59	21	25	38	14	1.92
1499127--1499202	13	5.3	13	77	17	71	17	22	44	15	1.86
1500045--1500082	15	2.6	15	87	4	60	18	0	7	73	1.06
1500045--1500081	20	1.9	20	94	5	67	18	0	8	72	1.08
1500923--1500990	13	5.5	13	75	10	79	17	42	22	17	1.89
1500937--1500980	23	1.9	23	85	0	61	20	43	20	15	1.88
1502285--1502319	18	1.9	18	88	0	52	54	0	17	28	1.43
1508758--1508791	17	2.0	17	100	0	68	47	11	23	17	1.81
1519973--1520035	25	2.7	23	79	11	74	58	1	3	36	1.23
1519983--1520034	25	2.1	25	92	0	86	53	1	3	40	1.30
1520370--1520436	32	2.2	31	87	10	102	50	1	2	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520439--1520484	24	2.0	23	87	12	67	50	0	2	47	1.13
1520616--1520654	18	2.2	18	85	0	51	51	2	0	46	1.14
1521693--1521765	27	2.7	27	86	0	110	41	4	12	42	1.61
1522698--1522735	19	2.0	19	89	0	58	57	0	0	42	0.98
1522712--1522782	25	2.8	25	81	12	83	61	2	1	33	1.19
1523869--1523909	20	2.0	20	85	4	55	26	24	21	26	2.00
1523930--1523973	21	2.1	21	95	0	79	22	25	25	27	2.00
1524060--1524114	23	2.4	23	100	0	110	41	10	7	40	1.68
1524376--1524410	18	1.9	18	88	0	52	40	28	0	31	1.57
1524739--1524788	25	2.0	25	92	0	82	38	26	14	22	1.91

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