genome.fa.s8117.2.7.7.80.10.50.1000.5.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: VEPZ01008117.1 Hibiscus syriacus cultivar Beakdansim tig00110656_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1567030

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 808 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)
1006055--1006111	20	2.7	19	78	19	60	36	1	0	61	1.07
1006064--1006142	38	2.1	38	83	9	99	37	8	0	53	1.32
1009889--1009999	27	4.1	27	84	4	127	31	13	9	45	1.76
1010547--1010605	23	2.6	23	83	0	73	35	18	20	25	1.95
1014040--1014078	19	2.1	19	85	0	51	41	17	7	33	1.79
1015887--1015922	18	2.0	18	88	0	54	19	25	30	25	1.98
1016560--1016600	21	2.0	21	95	0	73	24	17	29	29	1.97
1021858--1021888	2	15.0	2	93	6	53	48	0	3	48	1.17
1022303--1022351	18	2.7	18	83	0	71	18	24	28	28	1.98
1023456--1023510	27	2.0	27	86	6	76	47	5	0	47	1.25
1023498--1023562	31	2.1	31	94	0	112	24	4	3	67	1.24
1023672--1023754	28	3.0	27	77	10	78	38	4	1	55	1.29
1023696--1023765	28	2.4	28	79	9	70	40	5	1	52	1.34
1023806--1023861	19	3.1	19	71	10	53	51	0	5	42	1.24
1023889--1024012	29	4.2	28	75	20	103	54	2	7	35	1.41
1023882--1024013	58	2.2	59	75	16	132	52	2	8	37	1.44
1023910--1023967	27	2.1	27	87	12	84	53	0	10	36	1.35
1023908--1024000	31	3.1	31	80	13	90	53	2	6	37	1.39
1028060--1028096	18	2.0	19	94	5	67	27	16	10	45	1.80
1028657--1028800	70	2.1	69	93	3	245	54	4	12	29	1.56
1030937--1031016	31	2.6	31	87	0	115	36	2	13	47	1.57
1036527--1036577	24	2.2	24	86	10	70	47	0	1	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040486--1040514	2	14.5	2	100	0	58	48	0	0	51	1.00
1045418--1045653	51	4.8	50	80	6	234	27	12	13	46	1.80
1046284--1046317	16	2.1	16	88	0	50	41	2	2	52	1.31
1046688--1046735	15	3.1	15	90	3	69	35	6	20	37	1.78
1046666--1046735	31	2.3	31	82	0	77	37	5	21	35	1.77
1046696--1046739	16	2.8	16	93	3	72	36	9	22	31	1.86
1050704--1050752	25	2.0	26	84	8	66	40	6	18	34	1.75
1055722--1055795	35	2.1	37	87	5	107	27	12	8	52	1.66
1056620--1056708	5	16.8	5	77	18	83	41	2	2	53	1.25
1056620--1056705	32	2.7	32	98	1	163	41	2	2	53	1.26
1059743--1059882	52	2.6	52	79	12	149	28	18	13	39	1.89
1060259--1060297	17	2.4	17	95	4	71	58	12	7	20	1.58
1060610--1060735	23	5.9	20	87	9	137	23	17	38	21	1.93
1060610--1060735	43	2.9	41	79	16	139	23	17	38	21	1.93
1060957--1060996	21	1.9	21	89	0	62	50	10	10	30	1.69
1063871--1063950	39	2.1	39	95	2	144	48	10	6	35	1.62
1065008--1065152	59	2.4	59	85	10	181	33	16	17	33	1.92
1066644--1066706	20	3.2	20	100	0	126	31	9	4	53	1.54
1066427--1066931	275	1.8	277	96	0	951	39	10	10	39	1.75
1067356--1067403	23	2.1	23	84	7	62	37	10	18	33	1.85
1067241--1067403	87	1.9	87	93	0	281	41	12	14	31	1.82
1067422--1067872	197	2.3	197	82	5	538	31	15	15	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067398--1067915	197	2.6	194	78	6	524	31	15	14	38	1.88
1069623--1069678	24	2.5	21	76	18	58	51	10	0	37	1.37
1075746--1075792	20	2.3	20	75	7	51	17	21	12	48	1.79
1075720--1076369	182	3.6	181	84	3	777	26	17	13	42	1.86
1077736--1077820	34	2.5	34	78	16	95	62	1	0	36	1.03
1077736--1077965	47	5.0	48	67	19	118	58	0	2	38	1.15
1077889--1078112	16	13.6	16	66	18	77	58	0	2	39	1.14
1077798--1078231	151	3.1	137	86	10	601	56	0	3	39	1.20
1078032--1078105	18	4.2	18	72	18	66	64	0	0	35	0.94
1077889--1078317	151	2.9	154	88	7	627	56	0	3	39	1.19
1078180--1078252	7	9.4	8	73	23	50	58	1	1	38	1.15
1083164--1083194	15	2.1	15	93	0	53	25	25	22	25	2.00
1086319--1086360	22	2.0	21	85	4	57	26	9	9	54	1.63
1086319--1086366	22	2.2	22	81	7	53	29	10	8	52	1.65
1086583--1086672	20	4.8	20	77	13	100	24	28	18	27	1.98
1086603--1086671	35	2.0	35	88	0	102	24	26	20	28	1.99
1087124--1087191	34	2.0	33	88	2	100	32	17	27	22	1.96
1089487--1089536	24	2.1	23	88	3	73	20	12	6	62	1.50
1090264--1090292	5	5.8	5	100	0	58	41	0	0	58	0.98
1093778--1093807	2	15.0	2	100	0	60	50	0	0	50	1.00
1108268--1108301	15	2.2	16	89	5	52	76	5	2	14	1.09
1109917--1109959	19	2.2	20	83	4	52	62	4	2	30	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111977--1112258	77	3.7	76	90	4	435	24	22	28	23	1.99
1112475--1112870	196	2.0	200	96	3	734	34	12	17	36	1.87
1112919--1112994	31	2.5	31	78	8	91	23	6	15	53	1.65
1114129--1114181	7	7.7	7	77	12	56	9	15	0	75	1.04
1117406--1117554	74	2.0	74	100	0	298	24	30	6	38	1.81
1125643--1125676	15	2.2	16	89	5	52	76	5	2	14	1.09
1127318--1127360	19	2.2	20	83	4	52	62	4	2	30	1.28
1129421--1129702	77	3.7	76	93	1	467	25	22	28	23	1.99
1130180--1130254	31	2.4	31	80	8	89	21	6	17	54	1.65
1135477--1135822	173	2.0	172	99	0	683	28	24	13	33	1.94
1136183--1136245	20	3.1	20	80	13	83	19	26	38	15	1.92
1136184--1136245	21	3.0	21	88	4	99	17	27	38	16	1.91
1137692--1137739	19	2.5	20	82	3	62	29	12	6	52	1.63
1139014--1139091	21	3.8	20	80	8	95	15	25	41	17	1.89
1139014--1139091	42	1.9	41	89	5	122	15	25	41	17	1.89
1141520--1141609	30	2.9	32	77	8	89	54	2	5	37	1.36
1142876--1143225	127	2.7	128	78	9	356	33	13	12	40	1.82
1143089--1144002	199	4.6	199	79	5	928	34	13	13	39	1.83
1147113--1147157	12	3.8	12	78	0	54	6	33	0	60	1.23
1147108--1147157	24	2.1	24	84	0	64	8	34	2	56	1.40
1150790--1150973	92	2.0	92	100	0	368	17	11	25	45	1.82
1154264--1154365	35	2.9	35	89	2	159	34	3	17	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158882--1158941	21	3.2	21	65	30	62	31	5	20	43	1.73
1158876--1158980	35	3.0	35	90	5	160	30	6	17	45	1.74
1160806--1160845	17	2.3	18	95	4	73	45	5	0	50	1.23
1160815--1160854	17	2.6	15	82	17	55	57	2	0	40	1.12
1164819--1164865	24	2.0	24	87	4	69	72	4	0	23	1.02
1165141--1165215	31	2.4	31	93	0	123	28	8	14	49	1.71
1165354--1165423	25	2.9	23	83	12	79	51	1	4	42	1.30
1166331--1166371	21	2.0	21	90	0	64	21	26	21	29	1.99
1166414--1166476	20	3.3	20	75	24	82	23	15	33	26	1.95
1166414--1166485	20	3.8	20	71	23	66	22	16	31	29	1.96
1166515--1166585	36	1.9	37	88	8	110	26	19	28	25	1.99
1169491--1169563	34	2.2	34	85	2	94	20	30	13	35	1.91
1171006--1171050	15	3.0	15	78	12	56	28	13	31	26	1.94
1172315--1172371	29	2.0	29	86	6	80	29	24	7	38	1.82
1173554--1173693	69	2.0	70	95	4	257	37	10	4	47	1.57
1178063--1178114	21	2.5	20	81	9	52	44	0	1	53	1.11
1181915--1181947	15	2.1	16	88	5	50	9	24	15	51	1.72
1185105--1185162	16	3.7	15	84	11	80	41	6	25	25	1.80
1185105--1185161	7	7.1	8	74	21	57	40	7	26	26	1.81
1189852--1189908	16	3.6	16	90	0	96	43	7	24	24	1.79
1189851--1189907	7	7.1	8	75	20	57	42	7	26	24	1.80
1191034--1191095	19	3.3	19	69	24	58	38	0	22	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191034--1191179	38	3.6	38	73	16	130	39	1	26	33	1.65
1191070--1191222	48	3.4	45	75	18	151	38	1	28	31	1.68
1191034--1191223	86	2.2	86	91	0	299	40	1	26	32	1.66
1194884--1194956	3	24.3	3	81	5	76	41	0	0	58	0.98
1194875--1194926	15	3.5	15	86	0	68	38	0	0	61	0.96
1195738--1195778	9	4.8	9	88	11	68	56	0	34	9	1.32
1196227--1196275	22	2.2	22	89	7	73	26	4	2	67	1.19
1196210--1196268	22	2.5	25	81	10	72	25	3	1	69	1.13
1196227--1196275	11	4.5	10	82	14	53	26	4	2	67	1.19
1196454--1196661	115	1.8	116	83	5	278	38	10	9	41	1.71

Tables:   1   2   3   4   5   6   7