genome.fa.s7926.2.7.7.80.10.50.1000.29.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   36   37   38   39   40   41   42   

This is table  29  of  42  ( 5024 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)
6127966--6128036	19	3.7	19	92	3	115	11	18	22	47	1.80
6128019--6128106	33	2.6	33	89	5	124	10	25	25	39	1.87
6128074--6128131	20	2.9	20	80	10	64	13	24	18	43	1.87
6130189--6130255	21	3.2	21	66	6	55	23	35	20	19	1.95
6130133--6130255	42	2.9	42	80	4	115	23	36	17	22	1.94
6131614--6131649	14	2.6	14	95	0	63	30	0	25	44	1.54
6131828--6131958	19	7.7	19	66	23	94	15	22	19	43	1.87
6131834--6131958	33	3.8	32	86	8	180	15	21	19	44	1.87
6131825--6131957	66	2.0	66	94	0	230	17	21	18	42	1.90
6134245--6134269	12	2.1	12	100	0	50	0	28	0	72	0.86
6134444--6134497	24	2.2	24	90	0	81	38	20	16	24	1.92
6135543--6135580	20	1.9	20	94	0	67	39	23	21	15	1.92
6135599--6135676	33	2.4	33	86	4	104	15	23	20	41	1.90
6135599--6135657	14	3.8	16	76	24	63	15	22	18	44	1.87
6135764--6135800	14	2.6	14	86	0	56	48	21	0	29	1.50
6137669--6137735	19	3.5	19	83	4	89	37	23	23	14	1.93
6137724--6137781	14	3.9	14	79	16	71	48	25	17	8	1.75
6137708--6137786	32	2.4	33	95	2	142	46	24	18	10	1.80
6137815--6137872	14	3.9	14	75	16	53	10	13	24	51	1.72
6137798--6137888	32	2.8	33	86	3	139	13	16	20	49	1.79
6137873--6137927	20	2.8	19	83	8	65	16	23	23	36	1.94
6138409--6138453	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6139773--6139815	20	2.2	20	95	0	77	53	18	18	9	1.70
6140094--6140137	22	2.0	22	95	0	79	18	15	45	20	1.85
6140325--6140417	20	4.7	20	93	0	159	29	15	27	27	1.96
6140403--6140503	20	4.9	21	71	12	59	18	19	18	42	1.89
6140387--6140521	41	3.3	41	82	4	139	19	21	20	38	1.94
6140448--6140540	20	4.6	20	78	4	96	17	24	18	39	1.91
6140448--6140540	41	2.3	41	100	0	186	17	24	18	39	1.91
6141178--6141224	25	2.0	25	83	8	62	59	2	6	31	1.34
6144051--6144105	25	2.2	25	90	0	83	67	0	5	27	1.12
6153805--6153882	26	3.0	26	94	0	129	28	15	16	39	1.89
6154066--6154118	22	2.4	22	84	6	63	60	20	1	16	1.45
6154202--6154245	23	1.9	23	85	0	61	40	18	13	27	1.88
6155878--6156309	158	2.7	159	80	12	473	41	3	12	42	1.60
6155878--6156211	78	4.3	75	80	11	295	42	2	12	42	1.58
6155867--6156307	76	5.7	76	76	15	268	41	3	12	43	1.59
6176940--6177004	31	2.1	31	85	0	85	23	18	23	35	1.96
6176963--6177058	30	3.2	30	79	2	104	18	17	28	35	1.94
6181836--6181913	23	3.3	23	81	1	93	33	23	19	24	1.97
6183268--6183322	21	2.6	21	100	0	110	27	29	25	18	1.98
6185015--6185082	23	3.0	23	80	0	82	22	23	23	30	1.99
6189491--6189533	19	2.2	20	87	4	61	46	4	16	32	1.67
6189927--6189995	23	3.0	23	79	8	86	17	23	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6196977--6197006	7	4.1	7	95	4	51	43	43	13	0	1.43
6201668--6201752	26	3.4	26	78	14	81	40	0	2	57	1.11
6201740--6201812	26	2.7	25	79	16	67	41	0	1	57	1.07
6201692--6201832	66	2.1	65	90	6	192	42	0	1	55	1.13
6201808--6201869	19	3.3	19	78	15	58	37	1	0	61	1.06
6202342--6202401	31	1.9	31	86	0	84	41	8	6	43	1.61
6218040--6218199	64	2.5	64	81	5	198	33	18	18	29	1.95
6218683--6218807	31	4.0	31	96	2	225	18	19	24	38	1.93
6221944--6222032	30	3.0	30	91	1	135	31	26	21	20	1.98
6222028--6222127	31	3.2	31	78	10	123	34	19	18	29	1.95
6223318--6223362	21	2.1	21	87	0	63	15	24	28	31	1.96
6226503--6226591	30	3.0	30	91	1	135	31	26	21	20	1.98
6226587--6226687	31	3.2	31	79	8	123	33	17	18	29	1.95
6226590--6226686	32	3.1	32	78	12	119	35	17	17	29	1.93
6227882--6227926	21	2.1	21	87	0	63	15	24	28	31	1.96
6231066--6231154	30	3.0	30	91	1	135	31	26	21	20	1.98
6231150--6231250	31	3.2	31	80	8	132	33	18	18	28	1.95
6231952--6231999	2	24.0	2	100	0	96	50	0	0	50	1.00
6232029--6232084	29	1.9	29	82	7	69	44	23	1	30	1.63
6232473--6232517	21	2.1	21	87	0	63	15	24	28	31	1.96
6235127--6235249	31	4.0	31	94	2	212	20	19	21	39	1.93
6237530--6237589	23	2.6	23	86	0	84	31	26	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6239100--6239160	21	2.9	21	92	2	95	18	24	24	32	1.97
6242803--6242863	23	2.7	23	86	0	77	27	24	26	21	1.99
6244376--6244436	21	2.9	21	95	2	104	18	27	24	29	1.98
6254624--6254689	26	2.5	26	97	0	123	24	0	7	68	1.15
6257219--6257267	19	2.6	19	84	9	57	24	28	20	26	1.99
6257088--6257267	65	2.8	64	84	7	213	28	24	19	27	1.98
6265229--6265297	2	34.5	2	100	0	138	49	0	0	50	1.00
6265376--6265435	27	2.3	27	97	2	113	43	0	23	33	1.54
6265761--6265970	65	3.2	64	79	11	214	30	24	18	26	1.97
6265942--6265990	19	2.6	19	84	9	57	24	28	20	26	1.99
6266998--6267140	65	2.2	63	80	8	164	26	22	17	33	1.96
6267018--6267162	65	2.2	65	79	7	152	28	21	16	33	1.95
6278163--6278243	3	26.7	3	83	12	103	35	0	0	64	0.94
6279666--6279903	122	2.0	118	80	7	266	37	7	7	46	1.62
6291479--6291518	20	1.9	22	90	10	66	30	12	2	55	1.50
6291831--6292050	114	1.9	114	88	0	332	34	15	20	30	1.93
6292778--6293782	225	4.3	224	82	10	959	38	13	19	28	1.90
6293214--6293931	124	5.9	124	82	9	858	40	14	18	27	1.89
6292893--6293906	236	4.3	234	82	9	1053	38	14	18	28	1.90
6292749--6293782	348	3.0	347	86	6	1246	38	14	18	28	1.90
6294131--6294195	3	21.7	3	81	12	80	35	0	0	64	0.94
6294131--6294183	24	2.2	24	96	0	97	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6295505--6295537	3	11.0	3	93	0	57	33	3	0	63	1.10
6295731--6295773	20	2.2	20	86	0	59	32	0	2	65	1.06
6297466--6297514	2	24.5	2	100	0	98	51	0	0	48	1.00
6307013--6307062	22	2.4	22	83	6	68	56	0	2	42	1.11
6307896--6307954	2	29.5	2	100	0	118	50	0	0	49	1.00
6308142--6308199	20	2.9	20	92	0	89	25	20	5	48	1.70
6308534--6308585	21	2.5	21	81	3	61	38	19	25	17	1.93
6308571--6308702	41	3.2	41	78	6	124	35	25	16	22	1.95
6308574--6308688	20	5.7	20	82	6	115	32	26	18	23	1.97
6308876--6308919	22	2.0	22	95	0	79	20	45	15	18	1.85
6309144--6309181	20	1.9	20	88	0	58	13	15	21	50	1.78
6309318--6309372	25	2.2	24	78	15	58	20	9	18	52	1.71
6310500--6310544	18	2.5	18	88	0	72	26	44	15	13	1.83
6311054--6311099	20	2.3	20	88	0	65	36	26	21	15	1.93
6311093--6311175	19	4.6	19	76	19	97	48	20	16	14	1.81
6311182--6311290	19	5.9	19	76	13	84	12	20	22	44	1.85
6311182--6311306	20	6.7	19	75	11	98	13	19	23	44	1.86
6313154--6313188	14	2.5	14	90	0	52	31	0	22	45	1.53
6314423--6314487	19	3.7	19	74	19	77	44	20	23	12	1.84
6314403--6314485	33	2.3	36	78	18	100	40	21	22	14	1.90
6314483--6314555	19	4.1	19	77	16	77	12	16	26	45	1.82
6314498--6314624	33	3.9	34	84	8	156	11	20	21	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6314498--6314621	66	1.9	66	86	6	180	11	20	20	46	1.81
6314493--6314624	19	7.7	18	68	24	74	11	20	21	46	1.81
6314550--6314606	14	3.7	14	72	20	51	10	24	19	45	1.81
6314740--6314766	14	1.9	14	100	0	54	37	25	0	37	1.57
6316117--6316183	21	3.2	21	68	4	55	19	20	35	23	1.95
6316117--6316239	42	2.9	41	79	7	113	22	18	36	21	1.95
6316458--6316642	91	2.0	90	90	6	291	47	18	11	21	1.81
6318330--6318485	19	8.6	19	72	19	120	45	20	21	12	1.83
6318379--6318434	14	3.6	14	74	21	58	39	25	25	10	1.87
6318355--6318453	33	3.0	33	93	1	162	41	23	24	11	1.86

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   36   37   38   39   40   41   42