genome.fa.s9070.2.7.7.80.10.50.1000.4.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: VEPZ01009070.1 Hibiscus syriacus cultivar Beakdansim tig00112498_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2268343

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1013 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)
842438--842758	103	3.1	103	98	0	624	36	24	13	26	1.92
844205--844249	21	2.1	21	87	0	63	15	24	28	31	1.96
845772--845808	3	13.0	3	83	11	51	67	0	2	29	1.04
848619--848676	29	1.9	31	83	13	77	48	5	27	18	1.70
850040--850323	108	2.6	108	86	2	372	40	11	11	35	1.78
851078--851126	20	2.4	20	82	3	62	38	4	16	40	1.67
854971--855126	63	2.5	63	80	5	163	33	19	19	27	1.96
855581--855895	149	2.1	149	95	1	560	26	17	20	34	1.95
858589--858627	19	2.1	19	95	0	69	20	38	15	25	1.92
858526--858735	65	3.2	64	78	8	212	30	24	16	28	1.97
858526--858755	64	3.6	64	78	6	216	29	25	17	27	1.97
866134--866177	21	2.1	21	86	0	61	9	36	15	38	1.80
867217--867255	19	2.1	19	95	0	69	20	38	15	25	1.92
867154--867362	65	3.2	63	82	8	208	30	25	16	27	1.97
867203--867363	65	2.5	65	85	3	209	31	26	15	27	1.96
867154--867383	64	3.6	64	80	6	216	29	26	17	26	1.97
881242--881298	26	2.2	26	96	0	105	42	10	10	36	1.74
884817--884863	11	4.4	11	75	5	51	17	2	23	57	1.50
886541--886609	11	6.4	11	84	3	95	17	1	21	59	1.45
886549--886610	32	1.9	32	93	0	106	16	1	24	58	1.47
890326--890371	18	2.8	16	78	12	56	10	32	4	52	1.56
892737--892852	57	2.1	56	93	1	196	29	18	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
894681--894748	30	2.3	30	92	0	109	45	1	5	47	1.36
896640--896673	2	17.5	2	93	6	61	47	0	0	52	1.00
900586--900625	18	2.2	18	86	8	55	75	0	5	20	0.99
900584--900631	23	2.2	21	85	10	62	77	0	4	18	0.93
900592--900643	23	2.2	24	96	3	97	71	0	7	21	1.11
901566--901626	28	2.1	29	93	3	106	11	11	32	44	1.76
901955--901999	2	24.0	2	80	13	51	53	0	0	46	1.00
902452--902632	99	1.8	101	90	4	296	18	22	27	32	1.97
903684--903758	5	15.0	5	74	10	55	0	14	2	82	0.77
903687--903753	7	9.9	7	78	12	50	0	14	2	82	0.79
903687--903753	35	2.0	35	94	5	120	0	14	2	82	0.79
905395--905434	21	1.9	21	94	0	71	30	25	27	17	1.97
905395--905441	21	2.2	21	88	0	67	29	27	25	17	1.97
905465--905513	22	2.2	22	78	7	55	34	28	28	8	1.86
906299--906472	31	5.6	31	93	0	294	19	17	22	40	1.92
914105--914144	21	1.9	21	89	0	62	25	40	25	10	1.86
917339--917383	22	2.0	22	82	4	54	35	31	22	11	1.89
918168--918323	31	5.0	31	95	1	260	20	19	22	37	1.94
919682--919707	11	2.4	11	100	0	52	73	0	0	26	0.84
919679--919750	8	8.1	9	78	17	55	79	2	0	18	0.86
919679--919744	19	3.5	19	78	8	57	78	3	0	18	0.87
919714--919791	8	9.6	8	75	13	63	79	2	3	14	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919679--919800	16	6.6	17	70	21	70	76	3	2	18	1.04
919716--919799	32	2.7	32	82	10	95	78	3	3	14	1.02
922247--922298	21	2.4	21	90	3	77	44	13	3	38	1.62
924277--924308	16	2.1	15	94	5	55	15	0	0	84	0.63
925270--925351	29	2.8	29	94	1	137	32	14	9	42	1.79
930027--930108	29	2.8	29	94	1	137	32	14	9	42	1.79
934599--934682	29	2.8	29	90	3	132	32	14	9	44	1.77
955313--955356	19	2.2	20	80	11	56	29	0	6	63	1.20
957395--957454	27	2.2	27	82	5	68	30	20	15	35	1.93
957438--957514	27	2.9	27	75	7	75	25	16	15	41	1.88
957413--957523	54	2.1	54	83	6	136	27	17	17	37	1.92
963103--963245	59	2.4	59	88	5	200	36	4	24	34	1.75
981819--981863	21	2.1	22	84	12	58	62	4	28	4	1.34
981938--982573	327	2.0	324	89	2	970	31	18	32	17	1.94
994342--994377	14	2.6	14	95	0	63	50	11	0	38	1.38
1003948--1004110	87	1.9	87	90	0	263	42	9	12	34	1.76
1004246--1005082	182	4.6	182	92	1	1376	27	16	12	43	1.84
1004259--1005082	361	2.3	363	92	1	1375	28	16	12	42	1.84
1006097--1006139	20	2.3	18	85	14	61	20	16	11	51	1.75
1006102--1006148	20	2.4	19	82	10	67	19	17	10	53	1.72
1006069--1006543	182	2.6	182	86	1	673	26	16	13	43	1.85
1008310--1008353	15	3.0	14	90	9	70	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)
1009698--1010195	249	2.0	246	91	3	802	27	13	21	37	1.91
1010326--1010387	33	1.9	32	96	3	115	16	11	32	40	1.83
1010111--1010681	248	2.3	251	86	7	787	23	12	27	35	1.91
1010567--1010638	38	1.9	38	97	2	137	12	8	38	40	1.73
1012099--1012140	2	21.0	2	100	0	84	50	0	0	50	1.00
1012663--1012698	14	2.6	14	90	0	54	11	11	22	55	1.66
1013731--1013795	16	4.1	16	89	0	103	7	12	23	56	1.61
1013727--1013776	26	1.9	26	84	8	66	10	12	20	58	1.62
1019503--1020399	53	16.6	53	91	3	1310	27	29	14	28	1.95
1019503--1020399	108	8.3	106	92	2	1310	27	29	14	28	1.95
1023418--1023469	5	9.2	5	78	21	50	0	21	0	78	0.74
1023417--1023455	12	3.2	12	100	0	78	0	15	0	84	0.62
1023418--1023467	17	2.9	18	85	14	70	0	20	0	80	0.72
1023417--1023468	12	4.5	12	88	7	63	0	21	0	78	0.74
1026034--1026088	20	2.7	21	94	2	94	10	23	21	43	1.84
1026034--1026149	21	5.6	20	85	7	126	15	22	21	40	1.91
1037029--1037148	60	2.0	60	83	0	150	32	22	5	40	1.76
1037982--1038039	31	1.9	30	85	3	80	37	8	8	44	1.66
1049849--1049910	26	2.4	26	100	0	124	45	12	8	33	1.72
1052550--1052634	25	3.6	24	77	17	81	47	0	0	52	1.00
1052584--1052626	12	3.6	12	78	9	52	51	0	0	48	1.00
1052578--1052644	25	2.6	25	80	20	75	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059939--1059999	33	1.9	33	87	9	92	49	9	0	40	1.36
1060111--1060162	26	2.0	26	96	0	95	25	7	17	50	1.72
1064258--1064301	22	2.0	23	90	4	72	59	9	22	9	1.56
1071137--1071239	34	3.0	34	88	0	134	44	23	7	24	1.79
1081229--1081254	6	4.3	6	100	0	52	34	15	34	15	1.89
1081322--1081359	15	2.5	15	87	8	51	34	2	28	34	1.71
1087238--1087262	2	12.5	2	100	0	50	52	0	0	48	1.00
1093966--1093991	5	5.2	5	100	0	52	23	57	19	0	1.40
1094179--1094240	28	2.2	29	82	2	72	45	32	8	14	1.74
1094207--1094283	40	2.0	40	94	2	138	40	36	10	12	1.78
1094205--1094311	33	3.0	33	78	16	115	40	35	10	14	1.79
1097634--1097682	23	2.1	23	88	0	71	30	12	18	38	1.87
1097657--1097830	74	2.4	74	81	0	204	35	10	12	41	1.77
1097731--1097928	97	2.0	97	85	2	263	35	12	12	40	1.80
1097828--1097992	75	2.2	75	86	4	235	33	14	11	40	1.82
1097903--1098087	98	1.9	98	88	0	280	34	14	12	39	1.83
1097585--1098162	173	3.4	171	85	4	700	35	12	11	40	1.79
1098001--1098181	75	2.4	75	81	1	193	37	12	8	40	1.75
1098623--1098669	23	2.0	23	95	0	85	44	4	10	40	1.59
1102558--1102610	23	2.3	23	86	0	79	24	24	30	20	1.99
1102626--1102946	103	3.1	103	96	0	606	36	24	13	25	1.92
1103429--1103466	20	1.9	20	88	0	58	10	31	34	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103806--1104027	110	2.0	110	100	0	444	27	21	5	45	1.73
1109679--1109765	23	3.8	23	92	0	138	26	26	27	19	1.99
1109773--1110099	103	3.2	103	93	1	552	36	24	12	26	1.91
1110574--1110610	19	1.9	19	88	0	56	10	29	35	24	1.89
1110638--1110680	21	2.0	21	86	0	59	18	23	25	32	1.97
1119959--1119990	6	5.2	6	96	3	55	68	0	0	31	0.90
1121043--1121089	3	15.3	3	82	12	60	65	0	0	34	0.93
1121040--1121084	16	2.9	15	87	9	63	68	0	0	31	0.89
1121044--1121090	16	3.0	16	85	11	62	63	0	0	36	0.94
1121703--1121966	80	3.2	80	76	4	303	23	21	25	29	1.99

Tables:   1   2   3   4   5   6   7   8   9