genome.fa.s8356.2.7.7.80.10.50.1000.32.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  32  of  56  ( 6656 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)
6883859--6883964	2	53.0	2	100	0	212	50	0	0	50	1.00
6884525--6884759	60	3.9	60	85	3	312	36	22	17	23	1.95
6886066--6886095	3	10.0	3	92	0	51	63	0	0	36	0.95
6894280--6894323	21	2.1	20	84	16	54	63	13	4	18	1.46
6894643--6894687	15	3.0	15	80	9	56	11	2	4	82	0.91
6906282--6906371	32	2.8	33	76	6	85	27	28	12	31	1.93
6907100--6907152	22	2.4	22	93	0	88	43	9	22	24	1.83
6910326--6910375	2	25.0	2	100	0	100	50	0	0	50	1.00
6911794--6912037	50	4.6	50	70	16	127	39	13	9	36	1.78
6911658--6912044	52	7.4	51	70	13	207	39	14	8	37	1.76
6912229--6912341	49	2.3	49	96	0	208	29	12	15	43	1.83
6915088--6915170	35	2.4	35	100	0	166	19	15	13	51	1.75
6916114--6916148	2	17.5	2	100	0	70	48	0	0	51	1.00
6918926--6919055	41	3.2	41	79	4	145	26	14	21	36	1.92
6918944--6919071	41	3.1	40	77	12	134	28	17	22	32	1.96
6918963--6919095	41	3.2	40	76	12	135	24	16	24	34	1.95
6918926--6919085	82	2.0	82	88	0	239	28	15	21	34	1.94
6920694--6920734	18	2.3	18	87	8	57	39	34	0	26	1.57
6925289--6925329	18	2.3	18	87	8	57	36	34	0	29	1.58
6927586--6927626	18	2.3	18	91	8	66	36	36	0	26	1.57
6928822--6928994	90	1.9	89	90	1	274	38	10	6	44	1.65
6943762--6943791	4	7.5	4	92	0	51	73	0	3	23	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6944347--6944462	55	2.1	55	79	6	137	29	13	12	44	1.80
6946182--6946264	2	41.5	2	100	0	166	50	0	0	49	1.00
6947656--6947800	37	3.9	35	83	7	164	32	18	11	37	1.87
6947647--6947797	73	2.0	75	82	7	184	31	19	11	37	1.88
6948058--6948268	65	3.2	65	82	5	273	25	16	14	44	1.84
6948270--6948621	130	2.6	134	82	4	419	27	30	17	23	1.97
6948813--6948902	3	30.0	3	95	4	164	33	1	0	65	1.00
6951627--6951911	128	2.2	128	80	4	299	23	16	25	33	1.96
6951627--6951912	85	3.4	85	79	5	274	23	16	25	33	1.96
6951627--6951913	43	6.7	43	82	6	255	23	16	25	34	1.95
6952327--6952396	21	3.3	21	75	0	59	2	32	18	45	1.64
6952364--6952426	21	3.0	20	81	4	72	0	36	20	42	1.52
6957802--6957833	2	16.0	2	100	0	64	50	0	0	50	1.00
6960466--6960574	41	2.7	41	80	8	107	33	20	18	27	1.96
6960510--6960588	41	1.9	41	81	0	95	34	21	21	22	1.97
6960703--6960935	83	2.8	83	75	3	227	34	22	12	30	1.91
6960683--6961007	42	7.8	42	68	13	179	31	21	15	30	1.95
6975293--6975353	29	2.1	29	87	0	86	22	21	8	47	1.77
6975810--6976019	34	5.5	34	70	22	150	27	24	11	36	1.90
6975788--6976074	79	3.6	79	93	0	484	27	24	11	35	1.90
6975921--6976064	45	3.5	44	70	20	146	27	26	12	33	1.92
6976488--6976686	95	2.1	94	89	0	299	24	23	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6981209--6981348	18	7.8	18	90	0	199	24	29	24	22	1.99
6985419--6985488	18	3.9	18	84	0	95	27	32	21	18	1.97
6989647--6989698	18	2.7	19	88	8	70	36	11	17	34	1.86
6989700--6989872	95	1.8	95	87	2	258	39	12	23	24	1.89
6990305--6990802	81	6.1	81	89	0	708	34	11	21	32	1.89
6993241--6993292	18	2.7	18	85	8	68	34	11	17	36	1.86
6993279--6993481	95	2.1	95	86	4	302	37	13	23	25	1.91
6993879--6994376	81	6.1	81	91	0	800	34	11	22	30	1.90
6996688--6996869	95	1.9	95	87	2	267	39	12	23	24	1.89
6997294--6997789	81	6.1	81	92	0	803	35	11	21	30	1.90
6999777--6999828	18	2.7	18	82	8	59	34	11	19	34	1.88
6999815--7000015	95	2.1	95	88	3	307	38	13	22	25	1.90
7000437--7000763	81	4.0	81	91	0	521	35	11	22	31	1.89
7001991--7002417	181	2.4	182	88	2	617	41	12	9	36	1.75
7002092--7002475	181	2.1	180	84	2	493	39	14	10	35	1.81
7011732--7011756	2	12.5	2	100	0	50	52	0	0	48	1.00
7018634--7018778	7	22.5	6	67	15	58	35	6	1	55	1.35
7018634--7018778	3	45.0	3	67	15	58	35	6	1	55	1.35
7018650--7018785	19	6.7	19	68	19	60	37	6	1	54	1.36
7018647--7018688	22	1.9	22	85	9	59	40	7	0	52	1.29
7018708--7018765	23	2.5	23	82	0	71	36	6	0	56	1.26
7020062--7020264	11	18.2	11	66	23	61	20	5	1	72	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7020056--7020112	16	3.5	17	83	9	73	21	5	0	73	1.02
7020047--7020112	32	2.1	32	82	5	80	22	4	0	72	1.02
7020073--7020308	6	38.2	6	64	21	69	19	6	1	72	1.13
7020099--7020160	32	1.9	33	84	12	85	14	9	0	75	1.03
7020180--7020284	4	26.8	4	73	19	71	23	2	1	71	1.10
7020186--7020212	14	1.9	14	100	0	54	22	0	3	74	0.98
7020036--7020279	15	16.0	15	66	22	84	20	5	1	71	1.15
7020047--7020270	26	8.2	26	67	22	72	20	5	1	72	1.12
7031672--7031795	43	2.9	43	85	0	167	32	26	17	23	1.97
7032013--7032126	41	2.6	44	82	8	126	31	25	17	25	1.97
7034042--7034190	23	6.8	20	69	20	61	18	8	1	71	1.18
7034036--7034190	6	30.0	5	69	22	58	18	8	1	71	1.18
7034087--7034190	24	4.3	23	78	11	68	17	7	1	73	1.16
7034167--7034237	35	2.0	35	81	5	81	28	1	4	66	1.19
7041008--7041040	16	2.1	16	100	0	66	51	12	12	24	1.73
7040891--7043325	881	2.8	871	91	2	3874	35	14	17	31	1.90
7044491--7044591	50	2.0	51	84	1	132	19	25	21	32	1.97
7046866--7046966	50	2.0	51	84	1	132	19	25	21	32	1.97
7053945--7054045	50	2.0	51	90	1	159	20	27	19	31	1.97
7057490--7057590	50	2.0	51	88	1	150	18	23	21	35	1.96
7062220--7062273	26	2.1	26	89	0	81	37	29	9	24	1.86
7073004--7073352	2	186.5	2	66	26	135	40	1	6	51	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7073026--7073403	5	75.8	5	69	22	128	39	1	6	52	1.36
7073004--7073352	5	62.2	6	68	23	135	40	1	6	51	1.36
7072999--7073405	14	31.7	13	68	19	191	39	1	5	52	1.36
7073001--7073320	19	17.2	18	68	22	109	40	1	6	51	1.36
7073159--7073394	81	3.0	79	75	16	201	40	1	4	53	1.30
7075384--7075419	18	2.0	18	88	0	54	50	8	0	41	1.33
7076757--7076813	20	3.1	18	79	18	55	52	1	0	45	1.11
7076757--7076813	16	3.6	15	83	7	69	52	1	0	45	1.11
7078447--7078491	19	2.4	19	85	7	56	64	0	2	33	1.06
7082820--7083326	5	103.6	5	76	19	418	39	1	2	57	1.19
7083212--7083319	7	14.6	7	69	25	55	34	2	0	62	1.16
7083236--7083328	11	7.8	11	72	20	55	34	3	0	62	1.11
7086802--7086851	23	2.2	23	88	0	73	24	22	18	36	1.95
7089796--7089845	12	4.2	12	84	0	55	28	20	0	52	1.47
7091967--7092006	14	2.9	14	92	0	62	17	37	7	37	1.78
7096084--7096125	17	2.4	17	92	4	66	33	2	0	64	1.07
7096138--7096177	14	2.7	14	84	7	53	32	2	0	65	1.06
7096084--7096168	21	4.0	21	73	14	59	28	4	0	67	1.11
7096226--7096299	37	2.1	36	87	7	107	25	4	2	67	1.21
7096294--7096354	18	3.4	18	80	6	63	22	3	0	73	0.97
7096537--7096588	25	2.1	25	85	7	70	23	3	0	73	1.00
7096546--7096588	16	2.6	17	89	10	63	20	2	0	76	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7096545--7096593	16	3.0	15	83	16	62	22	2	0	75	0.90
7096581--7096638	25	2.3	24	79	5	62	15	5	6	72	1.24
7101436--7101642	106	2.0	106	84	0	270	35	22	19	22	1.96
7102050--7102204	37	4.4	37	65	23	102	29	18	11	40	1.86
7101909--7102081	87	2.0	87	89	2	267	34	19	11	35	1.88
7101996--7102233	102	2.3	102	89	0	368	32	18	11	37	1.87
7102132--7102204	37	2.0	37	91	0	119	26	19	12	42	1.86
7102273--7102371	36	2.7	37	92	3	173	28	22	13	36	1.91
7102282--7102468	101	1.8	102	88	5	290	29	21	11	37	1.89
7102381--7102467	36	2.4	36	86	5	124	27	22	11	37	1.89

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56