genome.fa.s520.2.7.7.80.10.50.1000.7.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: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1956684

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

This is table  7  of  11  ( 1212 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)
1213268--1213292	2	12.5	2	100	0	50	48	0	0	52	1.00
1213309--1213395	25	3.1	27	74	15	72	17	4	3	74	1.12
1215485--1216033	270	2.0	273	95	1	980	33	15	26	23	1.95
1217180--1217589	204	2.0	204	100	0	820	34	14	10	40	1.81
1218216--1218265	19	2.6	20	81	15	61	80	4	14	2	0.95
1218886--1218940	22	2.5	22	90	0	92	36	25	10	27	1.89
1219753--1220786	106	9.9	106	87	5	1399	34	25	17	23	1.95
1220145--1220299	43	3.4	43	71	14	150	34	25	18	21	1.96
1220234--1220786	105	5.2	106	88	4	814	34	26	16	22	1.95
1219822--1220786	411	2.3	413	88	4	1413	34	25	17	23	1.96
1220699--1220835	63	2.2	64	90	1	213	32	24	16	25	1.96
1220768--1221160	100	3.9	102	75	14	368	32	24	18	23	1.97
1221850--1221954	37	2.8	37	82	5	131	41	13	14	30	1.84
1222491--1222589	11	9.4	10	70	17	51	29	6	1	63	1.25
1222637--1222672	2	18.5	2	88	5	56	44	0	0	55	0.99
1222636--1222672	15	2.5	15	91	4	58	43	0	0	56	0.99
1223183--1223232	23	2.2	23	82	13	59	16	2	2	80	0.91
1223188--1223257	28	2.4	29	75	15	74	17	5	2	74	1.14
1223200--1223253	27	2.0	27	86	13	76	20	3	3	72	1.16
1224053--1224095	22	2.0	22	95	4	79	27	13	25	32	1.94
1226334--1226368	16	2.2	16	90	5	54	54	0	2	42	1.15
1227249--1227277	11	2.5	12	94	5	51	34	0	65	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229626--1229723	42	2.4	41	76	10	101	28	22	17	31	1.96
1238544--1238645	52	2.0	51	88	1	150	37	12	18	31	1.89
1240408--1240449	14	2.8	15	92	7	68	50	14	21	14	1.78
1241536--1241657	43	2.8	43	86	0	172	26	9	26	37	1.87
1242086--1242232	72	2.0	73	97	1	278	48	18	4	28	1.66
1244622--1244655	16	2.1	16	100	0	68	23	5	32	38	1.79
1245198--1245226	3	9.7	3	100	0	58	31	0	0	68	0.89
1247198--1250458	5	651.8	5	96	2	4690	24	0	19	55	1.48
1251613--1251662	20	2.5	19	87	12	66	24	16	28	32	1.96
1253561--1253588	2	14.0	2	100	0	56	50	0	0	50	1.00
1254174--1254240	22	2.9	22	78	14	64	23	5	1	68	1.20
1255689--1255721	14	2.3	15	84	10	50	42	6	0	51	1.26
1261308--1261521	110	1.9	110	93	0	365	36	8	17	37	1.80
1262712--1262820	57	1.9	57	86	0	155	34	7	17	40	1.77
1262909--1262994	23	3.7	24	80	10	92	20	22	26	30	1.98
1263529--1263555	11	2.5	11	100	0	54	7	18	55	18	1.65
1264175--1264314	64	2.2	64	83	2	165	27	20	26	25	1.99
1264633--1265447	210	3.8	213	93	1	1302	50	7	11	29	1.67
1264633--1265447	426	1.9	426	90	4	1306	50	7	11	29	1.67
1265473--1265563	2	44.0	2	70	14	51	48	2	5	43	1.38
1265490--1265703	20	10.1	20	67	19	105	46	6	5	41	1.52
1265484--1265587	42	2.5	41	85	7	138	48	2	5	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265555--1265615	27	2.2	28	88	2	88	47	8	4	39	1.55
1265738--1265864	11	11.9	11	77	13	88	42	2	0	55	1.13
1265657--1265909	2	129.0	2	69	18	140	45	3	2	49	1.31
1265919--1266033	18	5.9	18	76	18	106	42	9	6	41	1.62
1265862--1266033	80	2.2	78	79	12	197	43	8	7	40	1.63
1265916--1266038	38	3.1	38	82	13	158	43	8	5	42	1.60
1265916--1266058	80	1.8	75	86	7	205	43	9	5	41	1.60
1266004--1266082	33	2.5	31	88	8	122	43	10	6	40	1.64
1266031--1266181	53	2.8	53	90	3	223	41	8	4	45	1.55
1266116--1266188	2	34.0	2	74	17	58	43	5	2	47	1.40
1266116--1266188	20	3.6	20	83	9	87	43	5	2	47	1.40
1266136--1266486	33	10.4	33	67	22	89	44	8	5	41	1.59
1266142--1266210	34	2.0	36	85	5	97	46	7	2	43	1.46
1266249--1266497	18	14.1	18	68	15	155	44	7	6	41	1.59
1266306--1266363	17	3.5	17	69	21	59	41	5	6	46	1.53
1266320--1266500	51	3.5	51	85	12	276	44	6	6	42	1.56
1266367--1266486	58	2.1	58	90	3	199	43	6	7	42	1.59
1266320--1266521	51	3.9	51	82	13	196	45	6	5	42	1.54
1268637--1268671	16	2.2	16	94	0	61	8	5	17	68	1.35
1268800--1268878	26	3.0	26	98	0	149	22	10	27	39	1.86
1269533--1269630	51	1.9	52	93	2	171	47	6	4	41	1.47
1269600--1269640	17	2.4	17	95	0	73	46	7	0	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270738--1270788	23	2.2	24	79	10	61	56	0	5	37	1.23
1274105--1274131	2	13.5	2	100	0	54	51	0	0	48	1.00
1277681--1277714	18	2.0	17	88	11	52	41	0	23	35	1.55
1278158--1278195	20	1.9	20	88	0	58	55	5	0	39	1.23
1278158--1278201	20	2.2	20	83	0	52	54	4	0	40	1.21
1281211--1281277	32	2.1	32	100	0	134	41	2	20	34	1.68
1285045--1285081	17	2.2	17	95	0	65	27	13	2	56	1.50
1285750--1285803	22	2.5	22	78	6	56	50	0	3	46	1.19
1287406--1287449	3	16.0	3	82	17	51	68	2	0	29	1.02
1287398--1287452	16	3.6	16	80	7	62	65	1	0	32	1.03
1287710--1288010	126	2.4	125	88	4	441	24	18	14	41	1.89
1287940--1288457	225	2.3	228	86	3	710	29	19	12	38	1.89
1287925--1288459	113	4.8	113	88	1	718	29	19	13	37	1.90
1288481--1288725	76	3.2	76	93	0	409	33	20	20	25	1.97
1289401--1289452	22	2.4	22	90	0	77	38	15	9	36	1.80
1290955--1291021	35	1.9	34	84	6	82	35	23	8	31	1.86
1294306--1294373	25	2.9	23	78	12	77	2	14	1	80	0.89
1294310--1294380	15	4.6	14	72	14	52	2	16	1	78	0.94
1294678--1294709	2	16.0	2	93	0	55	50	3	0	46	1.17
1296331--1296386	27	2.1	27	89	0	85	60	7	12	19	1.55
1296360--1296387	12	2.3	12	100	0	56	53	7	14	25	1.66
1296446--1296487	7	6.0	7	78	10	50	54	14	16	14	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297973--1298029	28	2.1	26	83	6	69	59	1	5	33	1.30
1298905--1298946	16	2.6	16	88	7	59	57	4	2	35	1.33
1300501--1300544	3	16.0	3	82	17	51	68	2	0	29	1.02
1300501--1300547	16	3.0	15	81	3	58	68	2	0	29	1.02
1300511--1300554	23	2.0	23	91	8	74	72	4	0	22	1.02
1306192--1306249	30	2.0	29	90	10	91	44	17	5	32	1.70
1306192--1306251	29	2.0	30	93	6	104	43	16	6	33	1.74
1309458--1309540	20	4.0	21	80	7	82	26	26	27	19	1.99
1309467--1309540	20	3.7	20	85	3	103	28	24	28	18	1.98
1309458--1309540	41	2.0	41	90	4	132	26	26	27	19	1.99
1309587--1309641	22	2.5	22	96	0	101	23	21	30	23	1.99
1309742--1309799	30	2.0	29	90	10	91	44	17	5	32	1.70
1309742--1309801	29	2.0	30	93	6	104	43	16	6	33	1.74
1317264--1317313	21	2.4	21	83	9	59	62	0	0	38	0.96
1317273--1317315	13	3.2	13	87	9	59	65	0	0	34	0.93
1327242--1327293	12	4.6	12	81	11	56	71	0	7	21	1.11
1327253--1327303	22	2.3	21	78	21	59	72	0	3	23	1.01
1327255--1327301	20	2.2	20	88	7	67	74	0	4	21	0.99
1327342--1327384	18	2.4	18	92	0	68	72	0	6	20	1.08
1327734--1327768	12	3.0	12	87	4	54	62	2	25	8	1.38
1328236--1329007	200	3.9	200	83	4	947	25	19	20	34	1.96
1329161--1329299	42	3.3	42	66	18	124	17	23	28	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329070--1329354	86	3.3	86	93	1	473	20	23	26	29	1.99
1330156--1330246	19	4.6	20	82	5	114	20	36	29	13	1.91
1330156--1330254	39	2.5	40	80	11	132	21	37	27	14	1.92
1330156--1330254	20	4.9	20	80	4	78	21	37	27	14	1.92
1331535--1331582	19	2.5	20	82	3	62	52	6	12	29	1.63
1332990--1333053	21	3.0	21	86	0	83	20	39	25	15	1.92
1337885--1337939	21	2.6	21	91	5	85	23	18	29	29	1.98
1339708--1339755	19	2.5	19	76	13	53	66	2	4	27	1.21
1340288--1340388	12	8.0	12	69	11	60	78	0	4	15	0.98
1340327--1340388	5	12.6	5	77	20	51	79	1	4	14	0.98

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