genome.fa.s3744.2.7.7.80.10.50.1000.5.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: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457414

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

This is table  5  of  11  ( 1317 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)
1018294--1018331	20	1.9	20	88	0	58	57	23	0	18	1.40
1025269--1025324	25	2.2	25	83	0	67	39	1	5	53	1.34
1026415--1026455	18	2.3	18	87	4	57	29	7	2	60	1.36
1032073--1032101	12	2.3	13	94	5	51	62	6	3	27	1.37
1033179--1033210	15	2.1	15	94	0	55	25	3	0	71	1.00
1035321--1035384	29	2.2	29	85	0	92	39	9	10	40	1.73
1035433--1035457	2	12.5	2	100	0	50	48	0	0	52	1.00
1035567--1035603	18	2.1	18	94	0	65	21	5	8	64	1.40
1036282--1036365	43	2.0	43	82	0	105	40	20	9	29	1.84
1039884--1039927	21	2.1	21	86	0	61	18	15	29	36	1.92
1040053--1040104	21	2.5	20	81	6	59	65	5	0	28	1.16
1041382--1041456	22	3.4	21	71	15	53	28	1	2	68	1.12
1048150--1048331	71	2.6	68	82	10	224	44	14	10	30	1.78
1048934--1048984	25	2.0	25	92	0	84	19	0	27	52	1.46
1049903--1049980	15	5.2	15	75	6	68	33	5	19	42	1.73
1050085--1050151	23	2.9	23	84	0	89	20	25	26	26	1.99
1050083--1050201	46	2.6	47	80	11	113	20	21	25	32	1.97
1050127--1050211	24	3.6	24	82	6	93	23	21	24	30	1.99
1053222--1053268	24	2.0	24	83	8	60	29	4	8	57	1.48
1054395--1054430	17	2.1	18	89	5	56	33	2	0	63	1.08
1058751--1058803	21	2.5	21	96	0	97	9	32	5	52	1.57
1062621--1062654	13	2.4	14	85	14	52	47	32	14	5	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062628--1062657	13	2.3	13	100	0	60	43	33	16	6	1.74
1063839--1063901	23	2.6	24	78	19	60	50	1	0	47	1.10
1063873--1063919	22	2.1	23	88	4	69	44	2	0	53	1.12
1063867--1063946	32	2.5	32	80	14	92	47	2	0	50	1.14
1063978--1064089	28	4.0	29	72	15	83	48	0	1	50	1.11
1064048--1064133	23	3.9	23	78	14	83	53	0	0	46	1.00
1064061--1064134	11	6.4	12	71	22	61	55	0	0	44	0.99
1064237--1064314	24	3.0	26	76	14	81	50	0	2	47	1.15
1064204--1064312	24	4.1	26	71	16	71	52	0	1	45	1.11
1064423--1064452	14	2.1	14	93	0	51	36	20	6	36	1.79
1066258--1066296	2	20.0	2	94	5	71	48	0	0	51	1.00
1067117--1067150	12	2.8	12	86	0	50	67	0	11	20	1.21
1068012--1068075	27	2.4	27	91	0	101	29	21	18	29	1.97
1069034--1069083	26	1.9	26	91	0	82	26	8	16	50	1.72
1075679--1075776	46	2.1	47	98	1	189	33	8	8	50	1.62
1078222--1078290	27	2.4	29	81	11	72	42	2	20	34	1.67
1085518--1085552	2	17.5	2	100	0	70	51	0	0	48	1.00
1086459--1086501	16	2.6	17	77	3	52	58	0	0	41	0.98
1086702--1086948	135	1.8	135	87	5	374	31	18	27	23	1.97
1094505--1094542	20	1.9	20	94	0	67	28	21	10	39	1.86
1097135--1097203	35	2.0	35	100	0	138	28	18	28	23	1.98
1115163--1115220	22	2.5	22	83	5	71	46	12	12	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121879--1121941	28	2.2	28	82	5	72	25	12	17	44	1.84
1132111--1132143	16	2.1	16	100	0	66	57	24	12	6	1.57
1132212--1132256	16	2.8	16	96	0	81	55	22	13	8	1.65
1133343--1133402	10	5.6	10	75	14	57	53	20	11	15	1.72
1133330--1133389	24	2.5	24	83	5	68	56	15	11	16	1.67
1133350--1133424	24	3.3	24	76	14	77	50	21	13	14	1.77
1133330--1133402	34	2.1	34	84	0	101	54	17	10	16	1.70
1133343--1133420	20	3.7	20	74	12	66	51	20	12	15	1.76
1137887--1138275	193	2.0	196	98	1	757	26	16	19	37	1.93
1145411--1145638	112	2.0	112	99	0	447	42	11	6	39	1.66
1147321--1147370	26	1.9	26	84	8	66	18	2	6	74	1.12
1147289--1147366	34	2.4	32	79	16	88	17	3	5	73	1.18
1161989--1162123	45	2.9	48	81	13	156	37	22	10	30	1.87
1163006--1163039	17	1.9	18	88	5	52	52	2	0	44	1.16
1172760--1172848	45	1.9	47	88	4	137	38	21	11	29	1.88
1181394--1181756	117	3.1	116	91	0	546	22	21	27	28	1.99
1185015--1185239	114	2.0	114	97	0	423	28	14	24	33	1.94
1221625--1221667	22	2.0	22	85	0	59	62	9	0	27	1.25
1221649--1221684	16	2.3	15	90	4	54	52	5	0	41	1.24
1223753--1223802	24	2.1	24	88	7	75	58	14	2	26	1.47
1226107--1226149	14	3.0	15	83	10	54	76	6	0	16	0.99
1229348--1229397	24	2.1	24	88	7	75	58	14	2	26	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230745--1230798	18	3.2	17	86	5	74	62	1	0	35	1.06
1234770--1234809	21	1.9	21	89	0	62	10	25	40	25	1.86
1234792--1234852	20	2.9	21	87	7	79	18	26	34	21	1.96
1240667--1240707	19	2.2	19	95	0	73	29	26	17	26	1.97
1243442--1243509	27	2.5	27	95	0	118	52	20	4	22	1.63
1243667--1243701	18	1.9	18	94	0	61	48	0	20	31	1.50
1244953--1245027	35	2.1	35	80	0	87	25	14	12	48	1.78
1249776--1249975	76	2.6	76	84	7	246	20	23	33	24	1.97
1250569--1250611	7	5.6	7	80	20	50	55	30	0	13	1.39
1250574--1250617	17	2.6	17	92	7	72	54	31	0	13	1.39
1250569--1250619	8	6.2	8	82	8	59	56	29	0	13	1.38
1258392--1258588	75	2.6	76	89	4	283	19	23	32	23	1.97
1267803--1267862	29	2.0	31	90	6	97	36	6	15	41	1.73
1267927--1267993	19	3.5	19	87	0	89	40	10	11	37	1.77
1268098--1268138	20	2.0	21	90	4	66	24	21	26	26	2.00
1268167--1268206	20	1.9	21	85	10	55	37	37	10	15	1.80
1268422--1268491	34	2.1	34	92	5	117	32	15	30	21	1.94
1281599--1281633	17	2.1	17	88	0	52	65	0	11	22	1.24
1297597--1297630	5	6.8	5	93	0	59	23	35	41	0	1.55
1298123--1298202	31	2.6	31	93	0	133	25	13	16	45	1.84
1298199--1298236	20	1.9	20	94	0	67	26	15	10	47	1.78
1298253--1298292	14	2.9	14	88	3	64	60	27	10	2	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298240--1298269	10	3.0	10	95	0	51	60	23	10	6	1.52
1298549--1298596	10	4.4	10	80	19	60	58	12	12	16	1.63
1298548--1298648	24	4.2	24	86	5	132	55	17	13	12	1.69
1298559--1298624	14	5.0	14	83	14	86	57	16	13	12	1.65
1298559--1298652	38	2.5	38	87	3	127	55	18	14	11	1.69
1298583--1298652	14	5.3	13	76	22	58	54	20	15	10	1.69
1298868--1298920	24	2.3	23	81	12	63	54	3	9	32	1.50
1300521--1300618	39	2.5	39	86	3	135	38	13	16	31	1.87
1302484--1302531	16	3.1	14	82	17	51	18	8	6	66	1.39
1305553--1305612	30	2.0	29	87	3	84	43	10	11	35	1.75
1316351--1316393	20	2.2	20	91	0	68	37	20	18	23	1.94
1316387--1316457	20	3.6	19	77	11	72	40	25	14	19	1.89
1316610--1316648	16	2.5	15	84	8	51	28	5	0	66	1.12
1319666--1319701	18	2.0	18	88	0	54	55	22	2	19	1.56
1320039--1320083	20	2.2	20	88	0	72	20	22	22	35	1.96
1320058--1320124	34	2.0	34	100	0	134	19	23	20	35	1.95
1320175--1320297	66	1.9	63	83	8	160	50	17	0	30	1.52
1321609--1321706	21	4.7	21	71	7	65	23	18	34	23	1.96
1323769--1323855	20	4.4	20	86	1	104	49	18	18	13	1.80
1324348--1324476	20	6.4	20	79	5	136	19	14	23	42	1.88
1324348--1324487	60	2.3	60	82	4	158	18	15	24	42	1.88
1325049--1325111	32	1.9	34	83	6	85	38	11	3	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328322--1328380	31	1.9	31	96	0	109	27	3	11	57	1.50
1329532--1329577	21	2.4	19	82	13	58	28	10	10	50	1.71
1329537--1329586	21	2.4	21	86	0	73	36	10	10	44	1.72
1337969--1338029	26	2.3	26	100	0	122	39	16	9	34	1.82
1339345--1339455	18	5.9	18	78	8	114	25	29	23	21	1.99
1339356--1339458	38	2.7	38	95	0	179	26	29	21	23	1.99
1344576--1344618	20	2.2	20	91	4	70	30	23	18	27	1.98
1349652--1349683	6	5.3	6	96	0	55	43	0	56	0	0.99
1351031--1351577	277	2.0	273	84	6	727	40	13	5	39	1.69
1355089--1355131	14	3.1	14	79	0	50	67	0	18	13	1.23

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