genome.fa.s8650.2.7.7.80.10.50.1000.5.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: VEPZ01008650.1 Hibiscus syriacus cultivar Beakdansim tig00111640_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1713193

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 662 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)
1229546--1229619	34	2.2	34	97	0	139	29	12	35	22	1.91
1238845--1238877	15	2.1	16	88	5	50	69	0	0	30	0.88
1242798--1242923	55	2.3	55	91	0	207	40	16	14	28	1.88
1247748--1247792	15	3.0	15	83	0	54	55	0	0	44	0.99
1247756--1247792	14	2.6	15	83	12	51	54	0	0	45	1.00
1247658--1247883	119	1.9	118	84	6	305	47	8	6	36	1.61
1247669--1247906	118	2.0	119	80	7	270	49	8	6	35	1.59
1249383--1249448	3	21.7	3	78	3	69	63	1	0	34	1.04
1263886--1263928	22	2.0	22	100	0	86	13	25	18	41	1.88
1269348--1269458	35	3.2	34	82	3	132	44	20	0	34	1.58
1270518--1270630	35	3.2	34	88	5	163	33	0	23	42	1.60
1279485--1279534	14	3.2	16	72	13	50	38	4	0	58	1.17
1279547--1279583	17	2.2	17	86	13	51	56	0	5	37	1.22
1279602--1279638	17	2.1	19	90	10	60	40	0	0	59	0.97
1284887--1284916	11	2.6	11	94	5	51	50	0	0	50	1.00
1293399--1293453	27	2.0	27	82	10	67	41	14	12	30	1.83
1293951--1293993	19	2.3	19	91	0	68	18	20	27	32	1.96
1293957--1293997	19	2.2	19	100	0	82	14	21	34	29	1.93
1302456--1302568	24	4.8	24	85	3	113	30	20	22	27	1.98
1302528--1302570	11	3.8	11	80	17	52	23	20	23	32	1.98
1302503--1302578	23	3.3	23	86	1	89	25	21	23	30	1.99
1302528--1302578	12	4.5	11	80	7	57	23	21	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303960--1304059	7	14.4	7	85	2	121	20	0	35	45	1.51
1304580--1304609	14	2.1	14	93	0	51	43	0	6	50	1.28
1305971--1306019	20	2.5	20	82	0	62	42	16	20	20	1.89
1311916--1311959	21	2.1	21	91	0	70	47	18	6	27	1.73
1313031--1313105	38	2.0	38	86	0	105	52	10	10	26	1.69
1313785--1313844	21	3.2	21	60	30	53	21	11	16	50	1.77
1313781--1313884	35	3.0	35	95	2	183	22	11	17	49	1.78
1318967--1318996	14	2.1	14	100	0	60	40	13	20	26	1.89
1327354--1327681	162	2.0	162	90	1	514	32	17	25	24	1.97
1337498--1337536	19	2.0	20	90	5	62	30	0	10	58	1.31
1338935--1339039	45	2.4	44	83	3	129	49	3	7	39	1.49
1340217--1340245	14	2.0	15	93	6	51	55	0	0	44	0.99
1340503--1340672	93	1.8	93	93	0	295	32	14	12	41	1.83
1348854--1348924	31	2.3	31	80	4	81	22	11	15	50	1.75
1350122--1350200	31	2.5	31	89	0	122	51	12	11	24	1.72
1353541--1353587	23	2.0	23	100	0	94	57	8	8	25	1.57
1355698--1355732	17	2.1	17	94	0	61	31	17	5	45	1.71
1357435--1357481	21	2.2	22	82	17	64	53	8	0	38	1.32
1359073--1359102	2	15.0	2	100	0	60	50	0	50	0	1.00
1367338--1367446	21	5.2	20	78	8	85	30	21	20	28	1.98
1367354--1367451	21	4.8	20	80	12	110	29	22	21	26	1.99
1367587--1367627	5	7.8	5	97	2	64	24	56	19	0	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369806--1369852	2	23.5	2	91	0	76	48	2	0	48	1.13
1370593--1370620	14	2.0	14	100	0	56	42	0	7	50	1.30
1390227--1390423	33	6.2	33	74	9	174	27	4	40	27	1.74
1390283--1390376	27	3.3	27	80	14	91	24	4	43	27	1.73
1390283--1390402	60	2.0	60	90	3	188	24	5	42	28	1.75
1390318--1390409	27	3.2	27	69	21	78	26	5	41	27	1.77
1390287--1390468	93	2.0	90	85	3	247	26	4	41	26	1.74
1390451--1390566	39	3.0	39	93	0	187	21	8	43	25	1.81
1406795--1406821	12	2.2	12	100	0	54	48	0	0	51	1.00
1410853--1410888	3	12.3	3	94	5	65	33	0	0	66	0.92
1411325--1411369	14	2.9	16	83	12	58	37	0	4	57	1.19
1411584--1411700	42	2.8	42	89	0	171	17	18	17	46	1.85
1411893--1411973	22	3.5	22	71	15	65	51	1	1	45	1.16
1411875--1412066	29	6.3	30	68	17	96	49	0	1	48	1.14
1412148--1412214	30	2.3	31	82	10	79	55	1	0	43	1.09
1413181--1413255	38	2.0	37	82	5	89	49	4	1	45	1.29
1418837--1418875	7	5.6	7	96	0	69	0	12	2	84	0.72
1429544--1429590	18	2.5	20	86	13	80	51	0	6	42	1.27
1430083--1430175	31	3.0	31	98	0	177	22	15	38	23	1.92
1430180--1430223	22	2.0	22	95	0	79	27	25	31	15	1.96
1430760--1430797	18	2.1	18	100	0	76	52	5	21	21	1.66
1431845--1431889	21	2.1	21	83	0	54	31	8	2	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438453--1438493	20	2.0	21	90	4	66	46	19	14	19	1.84
1441139--1441195	30	1.9	30	92	7	98	54	12	7	26	1.63
1451716--1451753	15	2.5	15	95	0	67	52	31	10	5	1.58
1480124--1480165	20	2.2	20	86	4	59	33	4	9	52	1.55
1488103--1488169	31	2.1	31	88	5	98	32	4	10	52	1.56
1489173--1489222	21	2.4	21	96	0	91	34	6	4	56	1.43
1494594--1494655	27	2.3	27	97	0	115	30	14	12	41	1.83
1502793--1502932	71	2.0	71	95	0	253	45	17	17	20	1.86
1503964--1504000	20	1.9	19	89	10	58	45	10	24	18	1.81
1508753--1508841	29	3.1	29	85	0	124	17	40	28	13	1.88
1508899--1508976	3	25.7	3	79	7	86	30	1	1	66	1.07
1508899--1508970	37	1.9	37	86	5	101	29	1	1	68	1.07
1509013--1509043	11	2.9	11	95	4	55	38	41	19	0	1.51
1511168--1511228	30	2.0	30	100	0	122	26	22	9	40	1.85
1516544--1516577	4	9.0	4	87	12	54	50	26	0	23	1.50
1516540--1516585	22	2.1	21	92	4	74	50	23	2	23	1.61
1516933--1517069	38	3.8	38	68	20	123	32	18	10	37	1.86
1516960--1517092	67	2.0	66	97	1	248	32	18	10	39	1.84
1517278--1517358	36	2.3	36	80	6	94	32	20	9	37	1.86
1517293--1517396	36	3.0	36	81	4	124	32	20	11	35	1.88
1517652--1517803	29	5.5	26	84	9	137	27	11	15	46	1.79
1517650--1517803	28	5.6	28	86	7	199	28	11	14	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517653--1517761	54	2.0	53	89	1	164	25	12	15	45	1.82
1517814--1517917	52	2.0	53	94	3	183	33	12	17	36	1.87
1517887--1517945	28	2.2	28	81	6	68	35	6	16	40	1.76
1517901--1517971	28	2.5	28	88	8	101	33	5	16	43	1.72
1517950--1518070	37	3.5	37	66	23	107	33	11	10	43	1.76
1517922--1518088	67	2.5	66	92	5	275	31	11	11	45	1.76
1517867--1518038	95	1.8	91	83	9	222	31	10	15	42	1.80
1518502--1518719	97	2.3	97	97	0	411	26	17	13	42	1.86
1518580--1518720	32	4.4	31	71	10	95	27	17	12	42	1.85
1518758--1518836	36	2.3	34	84	8	97	27	17	15	39	1.90
1518831--1518905	36	2.1	36	82	9	91	25	17	12	45	1.82
1519019--1519236	46	4.9	46	74	13	188	24	30	20	25	1.99
1519074--1519304	41	5.5	40	75	13	178	25	33	17	23	1.96
1519028--1519352	130	2.6	127	91	2	494	24	32	18	24	1.97
1519204--1519320	40	2.9	39	80	12	105	24	35	16	23	1.95
1519516--1519604	3	29.7	3	84	4	117	31	1	1	66	1.06
1519641--1519672	11	2.9	11	100	0	64	37	43	18	0	1.51
1522074--1522135	24	2.7	23	80	7	63	50	6	3	40	1.44
1522146--1522170	10	2.5	10	100	0	50	20	52	16	12	1.75
1522415--1522450	11	3.2	11	84	7	54	22	22	19	36	1.95
1522742--1522794	28	1.9	27	88	3	79	32	1	16	49	1.57
1522741--1522805	27	2.3	29	82	10	82	36	1	15	46	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522921--1522975	18	3.4	18	65	31	52	38	0	9	52	1.33
1523003--1523042	21	1.9	21	100	0	80	27	0	15	57	1.38
1525562--1525654	14	6.6	14	71	18	68	47	13	0	38	1.44
1525561--1525654	25	4.0	25	74	20	94	46	13	0	39	1.44
1525581--1525664	21	3.9	21	71	17	55	50	10	0	39	1.37
1525579--1525686	46	2.4	45	81	13	123	45	12	0	42	1.41
1525633--1526052	60	7.1	60	90	6	653	44	14	0	40	1.47
1525794--1525880	10	8.7	10	71	18	56	42	16	1	40	1.55
1525633--1526052	119	3.5	120	95	2	735	44	14	0	40	1.47
1525626--1526052	179	2.4	177	89	8	652	44	14	0	40	1.47

Tables:   1   2   3   4   5   6