genome.fa.s8301.2.7.7.80.10.50.1000.6.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2065 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)
978381--978428	19	2.5	19	96	0	87	52	10	6	31	1.60
979996--981782	199	9.0	199	86	1	2266	30	16	14	38	1.88
979996--981781	397	4.5	398	86	2	2345	30	16	14	38	1.88
984471--984517	3	15.7	3	86	0	67	27	34	0	38	1.57
984647--984693	3	15.7	3	86	0	67	27	34	0	38	1.57
984433--984783	176	2.0	175	99	0	693	33	21	12	32	1.91
986207--987378	201	5.8	201	91	0	1788	33	14	14	37	1.87
986207--987378	403	2.9	402	90	0	1808	33	14	14	37	1.87
987827--987875	19	2.6	19	86	0	71	53	8	4	34	1.50
989424--989462	18	2.2	18	100	0	78	5	38	0	56	1.22
989645--989700	25	2.2	25	100	0	112	23	44	3	28	1.70
990159--990214	24	2.4	23	80	8	69	50	7	0	42	1.30
991983--992041	29	2.0	29	100	0	118	22	13	13	50	1.76
992193--992854	182	3.7	181	88	2	904	27	16	13	42	1.86
995380--995468	30	3.0	30	88	0	133	39	38	1	21	1.61
995693--995901	106	2.0	106	98	0	330	32	10	7	50	1.64
1002232--1002259	3	9.3	3	100	0	56	32	35	0	32	1.58
1004012--1004061	3	16.7	3	95	0	91	34	2	0	64	1.05
1005258--1005800	83	6.5	83	95	0	960	26	11	23	37	1.90
1006553--1007065	112	4.6	113	95	2	887	37	12	21	28	1.89
1006523--1007065	223	2.4	224	92	3	898	37	12	20	29	1.89
1007317--1007373	3	19.3	3	96	3	107	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009534--1009584	18	2.9	17	72	18	50	25	0	1	72	0.95
1021382--1022005	83	7.5	83	95	0	1095	27	12	22	37	1.90
1022763--1023281	113	4.6	113	96	1	916	37	11	21	29	1.89
1023533--1023605	3	24.7	3	94	2	130	34	1	0	64	1.02
1024465--1024534	30	2.3	30	97	0	131	40	17	25	17	1.90
1025062--1025099	19	2.0	20	84	5	51	39	2	0	57	1.12
1033493--1033855	186	2.0	183	92	1	600	41	3	9	46	1.53
1034882--1034936	23	2.3	26	81	12	73	54	0	3	41	1.18
1036620--1036655	3	11.7	3	88	5	54	61	2	0	36	1.11
1036864--1037978	123	9.7	120	81	11	694	27	19	15	37	1.92
1037229--1037974	341	2.2	331	89	4	1127	27	20	15	36	1.93
1037229--1038197	441	2.2	449	83	8	1210	28	19	15	36	1.93
1037636--1038295	223	3.0	223	87	7	863	31	18	15	34	1.92
1038637--1038678	22	1.9	22	90	0	66	38	14	14	33	1.86
1040883--1041317	114	3.8	114	91	0	692	31	21	16	31	1.95
1046616--1046668	14	3.7	14	84	2	61	52	7	15	24	1.68
1048859--1048905	25	2.0	24	87	8	69	53	0	0	46	1.00
1049059--1049103	17	2.6	17	92	0	72	71	0	2	26	0.98
1049070--1049134	33	1.9	36	82	14	86	66	1	1	30	1.10
1050582--1050631	3	16.3	3	80	12	57	60	2	0	38	1.09
1052514--1052576	16	4.4	16	69	22	50	52	0	3	44	1.17
1052545--1052576	16	2.0	16	100	0	64	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056114--1056186	32	2.4	30	86	9	94	41	4	9	45	1.56
1056130--1056209	32	2.5	32	93	2	133	40	6	11	42	1.66
1058825--1058898	23	3.2	23	94	0	130	39	22	21	16	1.92
1059361--1059408	2	24.0	2	100	0	96	50	0	0	50	1.00
1061128--1061154	10	2.7	10	100	0	54	37	0	11	51	1.37
1061842--1061881	2	21.0	2	87	10	57	55	0	0	45	0.99
1063403--1063450	3	16.0	3	82	0	60	58	0	6	35	1.23
1063405--1063444	15	2.7	15	96	0	71	57	0	7	35	1.27
1063971--1064458	66	7.3	66	81	8	508	38	14	19	28	1.91
1064035--1064064	15	2.0	15	93	0	51	36	23	20	20	1.95
1064039--1064355	102	3.1	101	91	1	517	38	14	19	26	1.91
1063971--1064458	168	2.9	161	81	8	593	38	14	19	28	1.91
1072768--1072808	13	2.9	14	92	7	66	29	21	19	29	1.98
1073429--1073496	10	6.1	10	75	21	64	58	22	11	7	1.57
1073431--1073496	23	2.8	23	90	2	105	59	22	12	6	1.55
1073753--1073798	14	3.1	14	93	6	74	52	17	15	15	1.76
1078502--1078570	23	3.0	23	82	0	84	17	24	23	34	1.96
1080328--1080375	3	16.0	3	86	0	69	60	0	4	35	1.16
1082293--1082335	13	2.8	16	76	23	56	55	0	0	44	0.99
1089142--1089261	60	2.0	60	100	0	240	31	13	11	43	1.80
1089258--1089351	47	2.0	47	89	0	143	42	13	11	31	1.81
1090589--1090673	36	2.4	36	95	0	152	40	25	5	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120588--1120617	2	15.0	2	100	0	60	50	0	0	50	1.00
1120886--1120966	28	2.7	29	76	17	78	61	1	7	29	1.31
1121346--1121403	29	2.0	30	89	3	91	34	25	15	24	1.95
1124180--1124511	81	4.1	81	92	0	574	35	12	24	27	1.91
1124498--1124587	29	3.1	29	90	0	135	45	8	21	24	1.80
1128116--1128198	41	2.0	41	95	0	148	33	22	10	32	1.89
1130969--1131014	17	2.7	17	96	0	83	39	4	15	41	1.67
1133967--1134265	148	2.0	148	100	0	598	27	23	20	28	1.99
1134541--1134598	29	2.0	30	86	3	82	51	5	18	24	1.66
1135070--1135180	39	2.8	39	83	2	143	47	0	14	36	1.50
1143520--1143564	18	2.5	18	88	0	63	66	0	2	31	1.04
1143522--1143568	22	2.1	23	88	11	71	70	0	2	27	0.99
1144142--1144173	15	2.1	15	100	0	64	34	12	18	34	1.89
1151775--1151853	23	3.7	21	80	8	79	24	25	17	32	1.97
1152311--1152354	14	3.3	13	84	6	54	34	11	9	45	1.72
1154440--1154621	73	2.4	74	84	2	213	29	24	21	23	1.99
1157979--1158016	15	2.6	15	87	4	51	68	0	7	23	1.16
1161079--1161120	18	2.3	18	87	0	57	69	0	7	23	1.13
1161951--1161975	12	2.1	12	100	0	50	68	0	0	32	0.90
1164740--1165006	2	137.0	2	81	5	314	41	0	58	0	0.98
1173526--1173811	64	4.5	64	79	13	329	30	23	19	26	1.98
1173485--1173672	62	3.0	62	77	15	233	31	22	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173476--1173811	126	2.6	128	90	5	511	30	23	19	26	1.98
1175178--1175279	51	2.0	50	98	1	195	37	21	19	21	1.95
1175814--1175854	21	2.0	21	86	13	59	51	2	7	39	1.43
1177101--1180073	6	513.2	6	88	10	4566	32	0	17	49	1.48
1182181--1182300	21	5.5	21	73	14	109	23	10	25	41	1.85
1182181--1182307	44	2.9	44	87	0	182	23	11	24	40	1.87
1186086--1186118	12	2.8	12	100	0	66	69	0	15	15	1.19
1187367--1187806	133	3.3	134	81	3	494	31	22	15	30	1.95
1187976--1188105	6	21.7	6	86	3	145	30	4	3	62	1.31
1187976--1188105	9	14.4	9	82	3	145	30	4	3	62	1.31
1189770--1189803	12	2.8	12	95	0	59	11	8	17	61	1.54
1191327--1191440	23	4.9	23	91	2	174	23	22	25	28	2.00
1191327--1191440	47	2.5	46	92	1	183	23	22	25	28	2.00
1193901--1193934	16	2.1	16	94	0	59	17	17	17	47	1.84
1196491--1197050	184	3.0	184	91	1	899	40	16	16	26	1.90
1197412--1197453	18	2.3	18	84	8	50	47	11	16	23	1.80
1201365--1201564	109	1.9	107	84	6	269	23	14	14	48	1.80
1213049--1213087	19	2.1	19	86	13	55	82	0	10	7	0.86
1213049--1213095	18	2.6	17	78	18	51	80	0	12	6	0.88
1215040--1215075	3	12.3	3	94	5	65	33	0	0	66	0.92
1216022--1216250	109	2.1	109	83	4	282	22	15	15	46	1.83
1216277--1216332	20	2.7	21	78	10	62	25	1	5	67	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216528--1216752	108	2.1	108	98	0	432	22	4	12	60	1.51
1220083--1220112	15	1.9	16	93	6	53	83	0	3	13	0.77
1220246--1220307	26	2.3	28	83	10	76	53	3	9	33	1.50
1221722--1221836	3	39.7	3	73	13	98	64	0	1	33	1.04
1221718--1221836	23	5.4	22	72	19	81	64	0	1	33	1.03
1221723--1221836	20	5.9	20	73	15	91	64	0	1	34	1.04
1222074--1222123	23	2.2	23	89	3	75	14	22	10	54	1.69
1222215--1222261	20	2.4	20	89	3	69	14	21	10	53	1.71
1222308--1222655	113	3.1	113	87	3	472	28	18	14	37	1.91
1232672--1232703	15	2.1	15	100	0	64	50	6	18	25	1.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18