genome.fa.s8803.2.7.7.80.10.50.1000.5.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: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1826237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1039 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)
883831--883882	26	2.0	26	92	7	88	38	19	15	26	1.91
905552--905576	10	2.5	10	100	0	50	92	8	0	0	0.40
909227--909274	22	2.2	22	85	10	64	29	4	16	50	1.64
909558--909650	48	1.9	48	84	4	125	19	19	24	36	1.95
915000--915140	31	4.5	31	97	0	255	39	21	19	19	1.93
918743--918853	31	3.6	31	95	0	195	38	22	18	19	1.93
922458--922630	31	5.6	31	96	0	310	39	22	18	19	1.92
926635--926674	2	20.0	2	100	0	80	50	0	0	50	1.00
933360--933740	57	6.6	57	88	3	491	31	19	11	37	1.87
933360--933746	172	2.2	173	88	4	552	31	19	11	36	1.88
934134--934309	96	1.8	96	84	4	239	27	21	14	36	1.92
934908--934983	38	2.0	38	100	0	152	36	18	5	39	1.73
935448--935484	16	2.3	16	100	0	74	29	21	0	48	1.50
938245--938724	57	8.5	57	85	5	600	33	19	10	35	1.87
939063--939285	95	2.3	96	87	6	312	27	22	15	34	1.94
942244--942312	30	2.3	30	85	5	86	50	8	18	21	1.74
943556--943591	18	1.9	19	88	5	56	50	2	0	47	1.15
943575--943624	22	2.2	23	83	16	61	42	2	2	54	1.23
951194--951245	20	2.6	20	96	0	95	26	19	3	50	1.65
958034--958178	21	6.7	21	78	12	132	22	6	24	45	1.77
958029--958157	44	2.9	44	91	0	195	22	6	26	44	1.78
958132--958167	12	3.2	12	77	22	51	22	8	25	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
958034--958181	65	2.3	67	83	9	182	22	6	25	45	1.77
962091--962175	35	2.4	35	86	4	107	47	23	0	29	1.52
962674--962743	35	2.0	35	91	5	115	32	0	21	45	1.52
963162--963258	47	2.0	48	92	4	160	37	12	25	24	1.91
963593--963666	3	25.0	3	94	2	123	66	2	0	31	1.06
975720--976290	81	7.1	81	88	2	785	30	23	11	34	1.90
975720--976290	161	3.5	160	87	3	776	30	23	11	34	1.90
975720--976290	242	2.4	242	87	2	824	30	23	11	34	1.90
976452--976872	54	7.8	54	85	4	505	27	19	19	34	1.96
976427--976870	160	2.8	161	82	6	551	27	19	19	33	1.96
976452--976872	109	3.9	109	85	4	559	27	19	19	34	1.96
978511--978619	53	2.1	53	98	0	209	27	14	21	36	1.92
980815--981161	54	6.4	54	89	2	502	36	22	16	25	1.94
997143--997382	54	4.4	54	85	5	297	35	20	17	27	1.95
997143--997382	108	2.2	108	86	4	333	35	20	17	27	1.95
1001482--1001563	20	4.0	20	78	12	76	15	25	32	25	1.96
1006801--1007062	130	2.0	130	100	0	524	35	5	16	42	1.71
1008999--1009054	25	2.2	25	93	0	94	39	8	21	30	1.84
1011625--1012018	54	7.3	54	82	1	423	37	19	15	27	1.92
1011631--1012018	162	2.4	162	84	0	472	37	19	15	27	1.92
1011625--1012006	108	3.5	108	85	0	485	37	19	14	27	1.91
1012725--1012772	22	2.2	22	96	0	87	37	12	18	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015930--1016060	65	2.0	64	98	1	253	41	17	16	23	1.89
1020073--1020120	19	2.5	19	96	0	87	29	10	29	31	1.90
1020576--1021016	54	8.2	54	85	4	541	35	19	17	27	1.94
1020576--1021016	215	2.0	216	86	1	616	35	19	17	27	1.94
1023335--1023371	17	2.3	17	86	9	51	27	16	16	40	1.89
1026490--1026924	54	8.1	53	87	1	555	35	19	16	27	1.94
1026490--1026932	162	2.7	162	88	1	629	35	19	16	27	1.94
1031528--1031579	20	2.6	20	100	0	104	38	15	28	17	1.90
1031955--1032312	54	6.6	54	84	0	464	34	19	18	27	1.95
1036321--1036557	54	4.4	54	92	1	379	38	18	11	31	1.87
1039762--1039812	20	2.5	20	83	0	75	23	21	13	41	1.89
1045827--1046115	54	5.4	54	90	0	452	38	17	12	31	1.87
1051785--1051946	57	2.8	56	81	5	182	38	16	13	32	1.87
1052956--1053117	57	2.8	56	81	5	182	38	16	14	31	1.88
1059539--1059600	23	2.7	23	85	2	81	20	32	25	20	1.98
1059582--1059618	19	1.9	19	88	0	56	24	35	27	13	1.93
1063706--1063755	17	2.8	18	82	17	61	18	0	4	78	0.91
1063710--1063762	14	3.8	14	80	5	54	16	1	3	77	1.01
1064032--1064074	19	2.3	19	84	8	52	30	9	16	44	1.79
1065733--1066002	49	5.6	49	79	6	257	35	12	21	30	1.91
1065738--1066002	93	2.8	95	80	8	268	34	12	21	30	1.91
1068410--1068447	14	2.8	14	84	4	51	23	0	2	73	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075622--1075653	16	1.9	17	93	6	57	43	15	0	40	1.47
1076702--1076757	27	2.0	29	89	6	89	26	5	3	64	1.32
1077026--1077114	26	3.3	25	76	14	72	51	2	0	46	1.13
1077025--1077083	22	2.7	22	82	10	66	52	0	0	47	1.00
1080230--1081348	116	9.7	116	91	2	1758	21	23	22	31	1.98
1081393--1081455	23	2.7	23	90	0	90	52	0	15	31	1.44
1081416--1081540	63	2.0	63	90	0	196	40	1	21	36	1.63
1081606--1081650	14	3.2	14	96	0	81	28	0	15	55	1.41
1082305--1082374	21	3.3	21	88	7	106	24	24	32	18	1.97
1084177--1084232	17	3.4	17	73	14	62	57	0	0	42	0.99
1084170--1084242	33	2.3	32	86	9	96	61	0	0	38	0.96
1084903--1084992	47	1.9	47	97	0	171	30	21	25	23	1.99
1089563--1089877	157	2.0	157	99	0	621	42	13	22	21	1.87
1093084--1093114	2	15.5	2	100	0	62	51	0	0	48	1.00
1093131--1093224	12	8.1	12	71	22	76	63	1	3	31	1.17
1093128--1093186	23	2.6	22	85	15	77	62	0	3	33	1.12
1094833--1094870	3	13.0	3	94	5	69	65	0	0	34	0.93
1094835--1094869	17	2.1	17	100	0	70	65	0	0	34	0.93
1094833--1094870	20	1.9	20	100	0	76	65	0	0	34	0.93
1094996--1096322	46	28.8	46	92	1	2196	35	18	20	25	1.95
1094996--1096322	323	4.1	323	93	1	2209	35	18	20	25	1.95
1098378--1098517	75	1.9	75	86	0	199	27	22	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106019--1106048	2	15.0	2	92	0	51	50	3	0	46	1.18
1113080--1113159	30	2.7	30	98	0	151	27	8	6	57	1.53
1118878--1119245	183	2.0	184	98	0	720	20	21	33	24	1.97
1119179--1119260	38	2.2	38	93	0	137	18	18	36	26	1.94
1119410--1119467	3	19.0	3	92	7	91	63	0	0	36	0.94
1119410--1119467	26	2.2	27	93	6	102	63	0	0	36	0.94
1122399--1122546	41	3.6	41	76	8	156	36	16	18	28	1.93
1123287--1123352	15	4.5	15	78	3	53	31	21	9	37	1.85
1123310--1123364	15	3.7	15	80	0	56	32	21	7	38	1.81
1123296--1123369	30	2.5	30	78	6	80	36	20	6	36	1.79
1130341--1130395	21	2.6	21	94	0	92	36	20	9	34	1.84
1133763--1133796	2	18.0	2	88	11	54	50	0	0	50	1.00
1133791--1133834	21	2.0	21	82	8	52	43	4	2	50	1.35
1134057--1134089	2	16.5	2	100	0	66	51	0	0	48	1.00
1135317--1135384	3	23.0	3	82	8	86	66	1	0	32	1.01
1135531--1137895	45	52.6	45	90	0	3678	34	18	22	23	1.96
1138551--1138603	22	2.4	22	93	0	88	39	13	13	33	1.83
1138973--1139114	54	2.7	53	78	3	160	23	21	14	40	1.90
1144257--1144293	19	2.0	18	89	5	56	32	21	0	45	1.52
1147973--1148006	2	18.0	2	88	11	54	50	0	0	50	1.00
1148103--1148168	25	2.6	25	75	15	64	63	0	0	36	0.95
1148094--1148170	38	1.9	38	84	10	100	64	0	0	35	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148290--1148315	3	8.7	3	100	0	52	65	0	0	34	0.93
1149591--1149659	3	23.0	3	85	5	95	62	0	0	37	0.96
1152262--1152317	29	1.9	29	85	7	78	62	1	14	21	1.40
1154044--1154084	14	3.1	14	89	6	59	63	2	0	34	1.08
1154246--1154278	16	2.1	15	94	5	57	24	9	33	33	1.87
1154282--1154977	118	5.9	118	80	3	708	26	21	14	37	1.92
1156300--1156516	55	4.0	54	87	3	310	41	17	9	30	1.82
1156543--1156702	57	2.8	56	80	7	178	40	13	11	35	1.80
1158067--1158128	28	2.2	28	88	5	90	19	1	41	37	1.61
1158886--1158925	21	2.0	20	90	5	62	12	12	0	75	1.06

Tables:   1   2   3   4   5   6   7   8   9