genome.fa.s9605.2.7.7.80.10.50.1000.6.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   26   27   28   29   30   31   32   
          33   34   35   

This is table  6  of  35  ( 4090 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)
915339--915389	21	2.4	21	86	0	75	39	21	15	23	1.92
917797--917823	14	1.9	14	100	0	54	22	7	25	44	1.79
919867--919936	30	2.3	30	90	0	104	37	11	11	40	1.77
919962--920023	13	4.8	13	87	0	79	35	16	19	29	1.93
919956--920011	26	2.2	26	90	0	85	37	14	19	28	1.91
923299--923332	18	1.9	18	88	5	52	52	17	5	23	1.66
926039--926297	132	2.0	133	89	2	396	35	18	17	27	1.94
936641--936667	13	2.1	13	100	0	54	29	37	7	25	1.83
938651--938928	140	2.0	140	92	0	457	24	23	20	32	1.98
944053--944424	43	8.6	43	84	2	327	20	20	22	35	1.96
944054--944267	87	2.5	88	86	3	299	19	22	23	34	1.97
944062--944339	130	2.1	131	84	3	362	20	21	22	35	1.96
944097--944382	130	2.2	129	82	5	344	21	20	22	35	1.96
944228--944448	85	2.6	86	82	6	243	20	19	22	37	1.95
949080--949409	43	7.6	43	85	3	389	18	22	23	36	1.95
949088--949410	87	3.7	87	85	4	388	18	22	22	35	1.96
949080--949410	130	2.5	129	85	4	427	18	22	22	35	1.95
957450--957509	31	1.9	32	89	3	95	50	5	3	41	1.41
957489--957541	22	2.4	23	75	9	56	52	1	3	41	1.30
957499--957558	31	2.0	31	83	6	79	51	1	6	40	1.38
957535--957578	21	2.1	21	91	0	70	45	2	11	40	1.53
957599--957731	28	4.6	29	78	10	139	48	3	6	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957623--957726	31	3.7	26	68	24	61	48	2	5	43	1.42
957835--957902	5	14.0	5	76	14	54	25	0	1	73	0.92
957834--957886	11	4.7	11	74	21	56	20	0	1	77	0.87
957831--957902	18	4.1	17	79	15	67	25	0	1	73	0.91
957825--957902	42	1.9	40	84	10	104	25	0	2	71	0.98
966026--966051	12	2.2	12	100	0	52	7	15	34	42	1.75
967040--967079	2	20.0	2	100	0	80	50	50	0	0	1.00
969374--969447	29	2.5	31	84	8	82	31	18	8	41	1.80
979689--979903	59	3.6	58	78	8	202	30	24	12	33	1.91
979732--979994	118	2.2	117	83	3	314	29	23	11	36	1.89
979718--979994	59	4.7	59	75	9	203	29	23	10	36	1.88
979634--980001	59	6.3	58	72	10	198	28	24	11	34	1.91
981562--981599	18	2.1	18	90	5	58	81	7	2	7	0.96
983145--983175	12	2.6	12	94	0	53	87	0	9	3	0.66
983789--983843	26	2.1	26	96	0	101	49	30	9	10	1.69
988357--988577	107	2.1	107	96	0	406	39	8	23	28	1.83
993193--993342	27	5.4	27	73	20	105	45	1	8	45	1.41
993314--993361	23	2.1	23	92	0	78	47	0	10	41	1.37
993371--993421	4	12.8	4	100	0	102	50	23	0	25	1.49
993430--993456	5	5.4	5	100	0	54	18	0	0	81	0.69
993437--993472	18	2.0	18	88	0	54	27	0	0	72	0.85
999096--999208	52	2.2	52	96	0	208	32	19	12	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000162--1000507	81	4.3	81	88	0	487	29	23	12	34	1.92
1000439--1000565	59	2.2	58	89	1	191	29	22	16	31	1.96
1000277--1000734	220	2.1	221	92	1	749	29	22	13	33	1.93
1000358--1000646	139	2.1	140	94	0	508	29	22	15	32	1.95
1000196--1000808	301	2.0	302	90	1	971	29	23	13	33	1.93
1000498--1000815	81	3.9	81	92	2	523	29	22	13	34	1.93
1007407--1008044	323	2.0	324	87	1	931	31	21	12	35	1.90
1007390--1008048	81	8.1	81	87	3	862	30	21	11	36	1.90
1013774--1013838	30	2.2	29	81	10	78	43	1	21	33	1.62
1014971--1015015	20	2.3	19	85	11	56	35	0	24	40	1.56
1016279--1016332	26	2.1	26	92	0	90	33	18	24	24	1.97
1025317--1025356	18	2.2	18	95	0	71	35	15	5	45	1.68
1045402--1045452	21	2.5	21	81	9	61	27	23	19	29	1.98
1045442--1045599	86	1.9	84	81	4	192	34	16	20	29	1.94
1054659--1054702	21	2.1	21	82	0	52	20	18	25	36	1.95
1061922--1061951	15	2.0	15	93	0	51	36	20	3	40	1.69
1071983--1072013	16	2.0	15	93	6	53	29	6	12	51	1.65
1072016--1072056	16	2.6	16	96	3	75	19	4	19	56	1.60
1072016--1072072	16	3.7	16	88	9	66	21	3	19	56	1.57
1086570--1086764	30	6.5	29	74	5	131	35	18	22	23	1.95
1086570--1086764	90	2.2	90	80	7	225	35	18	22	23	1.95
1087340--1087373	13	2.6	13	90	0	50	47	17	17	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089818--1089869	24	2.1	25	82	10	63	28	11	0	59	1.32
1090479--1090692	30	7.1	29	79	5	178	37	16	22	23	1.93
1090479--1090691	90	2.4	90	84	4	259	37	16	22	23	1.93
1090479--1090692	60	3.6	60	81	3	225	37	16	22	23	1.93
1090729--1090768	2	20.0	2	100	0	80	50	0	0	50	1.00
1090743--1090981	117	2.0	118	92	4	403	48	14	10	25	1.77
1092454--1092491	16	2.4	16	100	0	76	28	26	0	44	1.54
1092889--1093411	54	9.7	54	85	3	651	28	14	19	37	1.92
1099795--1100209	54	7.7	54	85	4	525	26	16	20	35	1.94
1099808--1100209	108	3.7	108	88	0	581	26	17	21	35	1.95
1099808--1100202	162	2.4	162	88	1	578	26	17	21	35	1.95
1100115--1100200	27	3.2	27	63	12	68	26	17	19	36	1.94
1100625--1100711	18	4.6	19	74	8	79	29	25	12	32	1.93
1100643--1100710	18	3.7	18	80	7	82	32	26	13	27	1.93
1100625--1100710	38	2.3	38	93	0	145	30	25	12	31	1.93
1106013--1106047	14	2.3	15	90	9	54	62	0	0	37	0.95
1111562--1111646	29	2.9	29	72	17	77	29	14	8	48	1.72
1121558--1121598	20	2.0	21	85	9	57	24	29	14	31	1.95
1124742--1125005	82	3.2	83	87	3	365	30	17	20	32	1.95
1124797--1125011	41	5.2	40	70	10	148	28	16	21	33	1.95
1125404--1125442	21	2.0	20	85	10	53	10	10	10	69	1.38
1126875--1126941	34	1.9	34	85	14	93	49	17	11	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131821--1132052	43	5.5	42	76	6	207	44	13	19	21	1.85
1131821--1132083	43	6.2	42	77	4	152	44	14	20	20	1.87
1131822--1132083	86	3.1	86	79	5	273	44	14	20	20	1.86
1141543--1141590	22	2.1	22	88	3	69	72	0	25	2	0.95
1155409--1155512	45	2.3	44	93	3	181	50	11	8	29	1.69
1158337--1158414	40	1.9	40	94	2	138	55	7	8	28	1.59
1164624--1164655	13	2.5	13	94	0	55	37	37	12	12	1.81
1164825--1164855	16	1.9	16	93	0	53	51	29	9	9	1.66
1165846--1165886	18	2.3	18	91	0	64	19	48	19	12	1.80
1167210--1167245	18	2.0	18	88	0	54	52	0	16	30	1.44
1168408--1168477	12	5.8	12	78	6	70	15	15	18	50	1.79
1168408--1168479	24	3.0	24	89	0	117	16	15	18	50	1.79
1168372--1168479	48	2.3	49	84	7	134	18	16	15	49	1.81
1170555--1170609	13	4.5	13	68	13	53	18	45	20	16	1.86
1170596--1170630	8	4.5	8	85	7	54	14	34	25	25	1.94
1170599--1170647	15	3.1	15	85	5	62	12	32	24	30	1.92
1171937--1171977	18	2.3	18	86	0	55	51	2	17	29	1.58
1173138--1173207	12	5.8	12	73	6	61	18	14	17	50	1.79
1173115--1173209	24	4.0	24	81	8	104	22	13	15	48	1.80
1173118--1173209	48	1.9	48	88	4	141	21	14	15	48	1.80
1174018--1174137	46	2.6	46	83	1	132	42	25	14	18	1.87
1176951--1177152	103	2.0	103	97	0	386	28	15	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181808--1181888	31	2.6	31	76	9	85	44	0	6	49	1.27
1182144--1182295	78	1.9	78	95	0	277	32	18	13	34	1.90
1182552--1183223	187	3.6	187	81	3	744	38	10	16	34	1.83
1183336--1183682	147	2.4	146	81	6	382	42	8	16	32	1.79
1183329--1183685	73	4.9	74	81	5	372	42	8	16	32	1.79
1185165--1185478	52	5.9	52	88	3	414	28	23	12	35	1.91
1185173--1185412	26	9.2	26	61	18	70	26	25	12	35	1.91
1185101--1185481	156	2.3	160	85	8	518	28	23	11	35	1.90
1185329--1185412	27	3.2	27	65	17	68	26	25	11	36	1.90
1185371--1185488	60	2.0	60	91	3	193	32	20	11	36	1.88

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   26   27   28   29   30   31   32   
          33   34   35