genome.fa.s6400.2.7.7.80.10.50.1000.7.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: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1412076

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 869 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)
1144418--1144459	15	2.9	15	82	3	50	35	0	0	64	0.94
1145368--1145414	20	2.3	21	78	10	62	29	4	0	65	1.11
1147399--1147559	55	2.9	55	83	3	182	31	17	19	31	1.95
1149237--1149707	182	2.6	181	90	2	712	42	12	17	28	1.85
1149696--1150638	404	2.4	398	88	3	1358	37	15	15	31	1.89
1149696--1150639	200	4.7	199	79	7	1052	37	15	15	31	1.89
1150398--1150443	21	2.1	21	84	4	56	30	15	10	43	1.81
1153802--1154279	197	2.4	198	82	5	583	38	13	15	32	1.87
1154274--1154436	87	1.9	87	94	0	290	30	15	12	41	1.85
1154358--1154402	23	2.0	23	90	0	72	35	20	8	35	1.84
1162438--1162533	36	2.7	36	93	0	165	38	16	27	17	1.91
1162474--1162658	67	2.7	67	84	0	217	42	17	18	21	1.90
1163145--1163200	15	3.6	15	81	9	76	21	35	26	16	1.94
1163249--1163293	15	2.9	16	86	6	74	24	31	31	13	1.93
1163239--1163291	15	3.3	16	84	7	72	26	32	28	13	1.93
1166255--1166331	3	25.3	3	86	2	91	58	0	0	41	0.98
1166562--1167683	113	10.0	113	95	1	1882	31	18	15	34	1.92
1167975--1168079	52	2.0	52	94	3	185	32	18	13	36	1.89
1168570--1169044	83	5.7	83	96	1	817	37	23	12	27	1.90
1170185--1170245	1	61.0	1	73	0	50	1	11	0	86	0.63
1170185--1170247	11	5.7	11	83	7	83	1	12	0	85	0.66
1170192--1170250	23	2.6	22	81	7	73	1	13	0	84	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177565--1177596	15	2.1	15	94	0	55	46	9	18	25	1.79
1182990--1183063	3	24.3	3	86	2	76	56	0	0	43	0.99
1188472--1188528	18	3.1	17	76	20	53	47	3	1	47	1.29
1190779--1190830	22	2.4	22	100	0	104	38	13	26	21	1.90
1191150--1191175	2	13.0	2	100	0	52	50	0	0	50	1.00
1196733--1196845	60	1.9	60	81	3	138	49	7	11	31	1.66
1198415--1198473	27	2.2	27	81	0	64	22	6	37	33	1.80
1198426--1198488	27	2.3	27	94	0	108	19	4	39	36	1.72
1215304--1215418	57	2.0	57	91	3	187	18	24	20	36	1.95
1217435--1217478	19	2.2	20	88	4	63	22	40	22	13	1.89
1224309--1224435	66	1.9	65	81	7	150	31	18	22	27	1.97
1224801--1224837	11	3.4	11	92	7	58	32	0	13	54	1.40
1228915--1229076	60	2.7	60	72	14	145	32	21	4	41	1.74
1229238--1229320	31	2.8	29	71	7	85	34	18	4	42	1.71
1229226--1229392	60	2.8	60	82	3	167	33	20	4	41	1.73
1229511--1229895	60	6.5	59	69	12	209	40	3	21	33	1.72
1229995--1230049	23	2.2	24	78	18	60	49	3	0	47	1.19
1230823--1230918	40	2.4	40	92	0	165	35	19	20	23	1.96
1230823--1230960	40	3.5	39	83	7	161	31	21	21	26	1.98
1230823--1230960	60	2.3	62	80	9	169	31	21	21	26	1.98
1230823--1230960	20	6.9	20	80	9	129	31	21	21	26	1.98
1231541--1231627	20	4.4	20	85	4	115	12	17	21	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233331--1233380	18	2.8	18	100	0	100	32	20	6	42	1.76
1233598--1233653	20	2.8	20	88	0	85	21	19	23	35	1.96
1233598--1233664	20	3.5	18	82	11	80	19	19	25	35	1.95
1234136--1234195	21	2.9	21	74	0	57	21	30	23	25	1.99
1235590--1235655	30	2.2	30	100	0	132	28	3	13	54	1.54
1235751--1236068	20	16.9	20	75	11	251	22	20	21	36	1.95
1235707--1235892	73	2.5	73	84	1	237	22	19	20	36	1.95
1235845--1236060	54	3.9	54	84	3	234	20	19	21	37	1.94
1235864--1236065	74	2.7	73	76	7	219	21	20	21	37	1.95
1236243--1236277	18	1.9	18	94	0	61	17	2	25	54	1.57
1238532--1238585	24	2.2	24	93	0	90	40	20	18	20	1.91
1241405--1241700	151	2.0	151	94	1	522	33	13	13	39	1.84
1242236--1242413	89	2.0	89	100	0	356	19	17	24	38	1.93
1248557--1248677	60	2.0	60	95	0	215	48	28	4	18	1.68
1268252--1268341	32	2.8	31	86	3	126	27	13	13	45	1.81
1268573--1268662	27	3.4	25	76	21	87	42	4	0	53	1.21
1268584--1268659	24	3.0	25	81	11	75	42	5	0	52	1.24
1268599--1268683	27	3.3	27	82	9	99	41	3	0	55	1.17
1268848--1268924	31	2.5	31	89	0	109	44	12	11	31	1.79
1271069--1271143	23	3.3	23	78	10	75	30	22	17	29	1.97
1277311--1277402	23	3.9	24	83	8	109	31	25	16	27	1.96
1279225--1279306	40	2.0	40	97	0	155	32	25	23	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290610--1290646	20	1.9	19	89	10	58	45	10	24	18	1.81
1290797--1290871	38	2.0	37	84	5	98	48	4	1	46	1.29
1291180--1291261	40	2.0	40	95	0	146	31	20	21	25	1.98
1291888--1291914	2	13.5	2	100	0	54	48	0	0	51	1.00
1291946--1292028	42	2.0	42	83	9	107	53	1	2	43	1.21
1292132--1292478	172	2.0	172	97	0	649	31	25	18	24	1.97
1300127--1300166	14	2.9	14	80	0	53	17	12	12	57	1.65
1300121--1300277	24	6.5	24	77	6	129	12	13	18	56	1.68
1303875--1303933	24	2.5	24	83	5	66	23	35	28	11	1.91
1303891--1303936	24	1.9	24	90	0	74	21	34	30	13	1.91
1304766--1304818	21	2.5	21	81	6	72	20	26	18	33	1.96
1304808--1304859	21	2.5	21	81	3	61	38	19	25	17	1.93
1304845--1304942	41	2.4	41	89	0	142	40	21	16	21	1.91
1304848--1304915	20	3.3	20	79	4	82	36	23	16	23	1.94
1305652--1305705	24	2.2	24	90	0	81	22	16	20	40	1.91
1310300--1310353	20	2.7	20	91	0	90	37	20	24	18	1.94
1310356--1310414	14	3.9	14	72	20	55	50	22	16	10	1.75
1310340--1310430	33	2.8	33	91	3	148	48	21	17	12	1.80
1310426--1310492	19	3.8	19	71	18	72	11	17	20	49	1.79
1310431--1310517	28	2.9	30	88	8	115	12	17	20	49	1.79
1310502--1310545	20	2.2	20	84	4	54	18	22	20	38	1.93
1311097--1311144	18	2.7	18	93	0	87	14	12	45	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312472--1312520	20	2.5	20	89	0	71	36	26	18	18	1.94
1312797--1312840	22	2.0	22	95	0	79	18	15	45	20	1.85
1313031--1313121	20	4.5	20	78	8	85	23	16	28	31	1.96
1313048--1313142	41	2.3	41	85	3	120	18	20	25	35	1.95
1313154--1313203	21	2.4	22	76	6	59	38	18	24	20	1.93
1314494--1314646	20	7.4	20	79	10	132	33	27	16	22	1.95
1314493--1314646	41	3.7	41	78	11	179	33	27	16	22	1.95
1314493--1314646	61	2.5	62	88	6	222	33	27	16	22	1.95
1315467--1315520	24	2.2	24	90	0	81	22	18	18	40	1.91
1315695--1315719	12	2.1	12	100	0	50	72	0	28	0	0.86
1317774--1317808	18	1.9	18	94	0	61	54	25	2	17	1.57
1318112--1318193	34	2.4	34	93	0	137	41	25	13	19	1.88
1318127--1318268	40	3.7	39	83	5	159	35	21	16	26	1.94
1318161--1318269	20	5.4	20	86	0	137	33	21	17	28	1.96
1318335--1318377	22	2.0	22	90	0	68	39	20	16	23	1.92
1319917--1320010	21	4.5	21	77	2	82	22	21	35	21	1.96
1319897--1320006	42	2.6	42	80	5	123	21	19	36	22	1.95
1320507--1320550	20	2.2	20	83	0	52	38	27	15	18	1.91
1320595--1320739	20	7.7	19	79	11	86	15	20	22	41	1.90
1320632--1320792	20	8.4	20	76	12	133	16	17	24	40	1.90
1320595--1320813	112	2.0	112	87	1	323	16	17	23	42	1.89
1321346--1321381	18	1.9	19	94	5	65	11	11	47	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323130--1323181	22	2.4	22	93	0	86	19	11	44	25	1.84
1323321--1323375	21	2.6	21	94	0	92	23	16	20	40	1.91
1323363--1323435	20	3.7	20	92	0	128	26	19	28	26	1.98
1327946--1328004	30	2.0	30	80	9	68	57	1	6	33	1.35
1334223--1334295	33	2.2	33	80	11	87	16	35	8	39	1.78
1340341--1340384	22	2.0	22	81	0	52	52	15	4	27	1.63
1342786--1342843	3	18.0	3	76	13	53	67	1	3	27	1.17
1342787--1342843	13	4.1	14	75	24	66	68	1	3	26	1.15
1342998--1343496	40	11.7	42	70	12	243	25	19	29	25	1.99
1343133--1343509	83	4.4	84	73	10	318	23	20	30	25	1.99

Tables:   1   2   3   4   5   6   7   8