genome.fa.s8016.2.7.7.80.10.50.1000.5.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  5  of  25  ( 2971 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)
973020--973057	16	2.4	16	100	0	76	34	18	18	28	1.95
977627--977683	27	2.1	26	84	12	71	43	8	0	47	1.34
978519--978605	23	3.6	23	70	17	68	58	3	3	34	1.32
978519--978599	28	3.1	28	61	23	66	60	3	2	33	1.27
979061--979094	6	5.7	6	92	0	59	20	50	0	29	1.49
981039--981068	2	15.0	2	100	0	60	50	0	0	50	1.00
983841--983866	13	2.0	13	100	0	52	46	0	0	53	1.00
985164--985207	3	14.7	3	95	0	79	0	34	0	65	0.93
991709--991733	12	2.1	12	100	0	50	40	0	0	60	0.97
992129--992175	21	2.2	21	100	0	94	25	17	29	27	1.97
992327--992366	11	3.8	11	90	9	66	27	52	20	0	1.46
992327--992362	5	6.8	5	90	9	54	25	55	19	0	1.43
992867--992891	6	4.2	6	100	0	50	32	0	32	36	1.58
992989--993082	22	4.4	22	76	8	113	36	24	19	20	1.95
996593--996640	21	2.3	22	82	10	64	18	29	29	22	1.98
997253--997291	20	2.1	19	86	13	55	38	12	7	41	1.72
997484--997570	22	3.9	22	89	3	129	31	27	21	19	1.98
997484--997571	45	2.0	45	93	0	149	31	27	21	19	1.97
1000029--1000076	22	2.1	23	88	3	71	47	0	0	52	1.00
1000003--1000073	26	2.8	25	78	18	74	45	0	1	53	1.09
1004928--1004974	21	2.2	21	88	7	69	36	19	19	25	1.95
1012652--1012683	14	2.3	14	94	0	55	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019846--1019895	20	2.5	20	83	0	73	44	14	24	18	1.86
1020500--1020538	15	2.6	15	83	0	51	64	5	10	20	1.44
1022377--1022405	12	2.3	13	94	5	51	48	0	34	17	1.47
1031858--1031903	21	2.2	21	88	0	65	30	28	26	15	1.96
1032631--1032816	31	6.0	31	92	2	304	20	19	22	37	1.95
1032631--1032816	61	3.0	61	94	3	311	20	19	22	37	1.95
1032633--1032816	92	2.0	92	92	2	307	20	20	22	36	1.95
1033621--1033651	14	2.2	14	100	0	62	93	0	6	0	0.35
1035815--1035854	19	2.0	20	85	4	55	25	30	27	17	1.97
1036575--1036759	31	6.0	31	92	2	295	20	19	22	37	1.94
1037942--1037986	21	2.1	21	100	0	90	24	28	15	31	1.96
1047431--1047455	3	8.3	3	100	0	50	0	0	32	68	0.90
1065843--1065913	30	2.4	30	92	0	124	26	1	4	67	1.17
1065876--1065931	22	2.5	22	94	0	94	28	1	5	64	1.26
1065843--1065913	4	16.8	4	74	11	61	26	1	4	67	1.17
1073538--1073577	21	1.9	21	89	0	62	25	40	25	10	1.86
1083319--1083374	20	2.7	21	88	2	78	30	25	21	23	1.99
1083385--1083464	19	3.8	20	76	17	74	32	6	30	31	1.82
1083828--1083909	21	3.9	21	85	0	110	31	25	18	24	1.97
1083825--1083909	42	2.0	42	93	0	143	31	25	18	23	1.97
1083926--1083963	19	2.0	19	94	0	67	50	15	13	21	1.78
1084922--1084971	17	3.0	17	74	11	50	48	28	10	14	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091020--1091069	21	2.4	22	80	10	59	72	4	6	18	1.22
1091027--1091069	20	2.1	21	86	4	61	72	4	6	16	1.24
1098630--1098669	21	1.9	21	89	0	62	25	40	25	10	1.86
1102443--1102491	25	2.0	24	84	4	62	71	0	4	24	1.03
1103548--1103622	35	2.1	35	90	0	114	33	29	26	10	1.90
1103699--1103789	24	3.8	24	82	2	112	38	18	15	27	1.91
1103699--1103789	47	1.9	48	86	2	130	38	18	15	27	1.91
1106089--1106146	13	4.5	13	93	0	89	18	20	44	15	1.86
1109510--1109552	3	14.0	3	85	4	59	37	0	0	62	0.95
1112122--1112174	27	2.0	27	85	3	72	15	15	5	64	1.47
1112265--1112607	168	2.0	168	97	0	650	36	23	21	18	1.95
1114240--1115980	105	16.9	105	87	5	2394	33	25	18	23	1.96
1116176--1116259	37	2.3	37	85	4	118	25	20	13	41	1.88
1116298--1116480	84	2.2	84	82	1	213	31	27	19	21	1.97
1117706--1117782	4	18.8	4	74	21	54	18	2	1	77	0.95
1117700--1117790	18	4.8	18	78	18	105	17	2	1	79	0.90
1117700--1117789	5	17.6	5	76	17	71	17	2	1	78	0.91
1117700--1117788	36	2.3	40	87	12	134	17	2	1	78	0.91
1121767--1121799	14	2.3	15	89	5	50	63	0	3	33	1.10
1123080--1123172	32	3.0	29	78	9	96	33	21	17	27	1.96
1123076--1123170	30	3.1	30	80	5	109	34	22	15	27	1.94
1133298--1133507	104	2.0	104	95	0	375	26	11	17	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135031--1135076	23	2.0	23	87	8	67	45	6	0	47	1.28
1135053--1135128	38	2.0	38	87	5	109	43	3	3	48	1.40
1146820--1146859	4	10.0	4	83	0	53	47	0	2	50	1.14
1146820--1146859	6	6.7	6	85	0	53	47	0	2	50	1.14
1146820--1146859	10	4.0	10	90	0	53	47	0	2	50	1.14
1146828--1146868	14	3.1	14	86	6	50	51	0	2	46	1.14
1149432--1149587	31	5.0	31	93	1	251	38	22	18	20	1.93
1149706--1149820	59	2.0	58	81	5	133	27	20	9	41	1.84
1152639--1152823	95	2.0	94	84	3	246	33	18	18	29	1.95
1154229--1154421	99	1.9	99	89	2	298	34	24	19	20	1.96
1154976--1155020	11	4.3	11	83	5	58	44	0	2	53	1.13
1156169--1156236	22	3.1	22	69	10	52	22	4	5	67	1.30
1156696--1156869	4	40.5	4	70	16	59	21	5	2	70	1.19
1156699--1156736	5	7.4	5	90	3	58	21	2	0	76	0.91
1163333--1163365	17	2.0	17	88	5	50	24	3	30	42	1.70
1165302--1165353	19	2.7	19	87	0	77	26	19	13	40	1.88
1170918--1170984	34	2.1	33	83	13	86	61	10	4	23	1.47
1171072--1171127	27	2.1	27	93	0	94	30	17	5	46	1.71
1174835--1174886	13	3.6	14	82	17	63	11	19	0	69	1.18
1175493--1175544	13	4.2	13	75	7	54	19	1	0	78	0.84
1177540--1177576	19	2.0	20	89	10	60	54	2	8	35	1.44
1182472--1182536	26	2.7	24	81	9	62	56	0	3	40	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182905--1182946	4	10.0	4	85	10	57	71	2	0	26	0.98
1182905--1182983	30	2.6	30	81	0	104	65	3	2	27	1.22
1182977--1183024	19	2.6	18	87	9	69	70	6	6	16	1.28
1184149--1184213	3	21.7	3	100	0	130	66	0	0	33	0.92
1186658--1186738	39	2.1	38	90	6	128	32	3	12	51	1.57
1195240--1195314	39	1.9	39	94	0	132	36	2	10	50	1.51
1198398--1198473	29	2.6	29	91	0	116	22	28	32	15	1.95
1198514--1198552	19	2.1	19	100	0	78	25	28	35	10	1.89
1214559--1214672	55	2.1	55	96	3	212	41	7	8	42	1.63
1214570--1214690	55	2.2	55	86	5	156	41	7	6	44	1.58
1217081--1217125	4	10.8	4	81	9	54	33	0	66	0	0.92
1217080--1217126	17	3.0	17	79	20	66	36	0	63	0	0.94
1217085--1217121	13	2.8	13	100	0	74	35	0	64	0	0.94
1221308--1221373	24	2.7	25	86	6	91	54	24	0	21	1.45
1221360--1221400	21	2.1	19	90	9	64	46	29	0	24	1.53
1222794--1222838	4	10.8	4	81	9	54	33	0	66	0	0.92
1222793--1222839	17	3.0	17	79	20	66	36	0	63	0	0.94
1222798--1222834	13	2.8	13	100	0	74	35	0	64	0	0.94
1227017--1227082	24	2.7	25	86	6	91	54	24	0	21	1.45
1227069--1227109	21	2.1	19	90	9	64	46	29	0	24	1.53
1241083--1241142	19	3.2	18	76	9	57	21	28	26	23	1.99
1241066--1241121	29	1.9	29	92	0	94	21	26	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241151--1241236	29	3.0	29	87	1	129	41	0	13	44	1.44
1244938--1244998	23	2.7	23	89	0	95	26	27	26	19	1.99
1245006--1245334	103	3.2	103	99	0	640	35	23	14	26	1.93
1246423--1246453	16	1.9	16	93	0	53	51	22	0	25	1.48
1251789--1251818	15	2.0	15	100	0	60	6	46	33	13	1.69
1251894--1251941	18	2.7	18	100	0	96	16	45	22	14	1.84
1251942--1252019	28	2.7	29	88	5	106	32	1	17	48	1.56
1251972--1252042	28	2.5	28	86	4	90	38	2	12	46	1.57
1259575--1259608	16	2.1	16	94	0	59	32	26	8	32	1.87
1260068--1260111	22	2.0	22	86	4	63	50	15	6	27	1.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25