genome.fa.s8356.2.7.7.80.10.50.1000.33.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  33  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)
7107286--7107327	20	2.1	20	90	0	66	28	26	2	42	1.67
7113943--7113992	20	2.4	21	80	12	59	30	26	16	28	1.96
7125888--7126003	55	2.1	55	90	3	180	33	9	22	34	1.86
7130715--7130739	11	2.3	11	100	0	50	8	28	64	0	1.22
7151489--7151654	30	5.4	30	77	5	154	18	6	54	20	1.66
7157167--7157198	15	2.1	15	94	0	55	6	25	15	53	1.65
7157473--7157516	17	2.6	17	85	0	70	15	13	31	38	1.87
7157968--7158000	16	2.0	17	94	5	59	39	18	6	36	1.75
7160125--7160208	43	1.9	44	83	7	109	58	2	1	38	1.19
7160831--7160904	31	2.4	31	86	0	94	31	17	14	36	1.90
7161286--7161359	33	2.2	33	97	0	139	33	29	13	22	1.93
7163395--7163461	28	2.3	29	85	7	93	49	0	0	50	1.00
7163828--7163882	10	5.1	10	75	16	56	60	18	10	10	1.59
7163834--7163860	14	1.9	14	100	0	54	59	14	14	11	1.62
7163845--7163882	20	1.9	20	100	0	76	60	18	10	10	1.57
7167335--7167382	21	2.3	21	100	0	96	25	18	14	41	1.88
7168632--7168672	21	2.0	21	85	9	57	39	9	0	51	1.35
7170398--7170451	24	2.2	24	83	0	63	42	14	22	20	1.88
7171588--7171894	81	3.8	81	84	3	395	28	23	10	36	1.89
7171588--7171880	161	1.8	161	86	1	426	29	23	10	36	1.89
7171840--7171944	54	1.9	54	96	3	194	28	25	9	36	1.87
7171763--7172025	135	1.9	135	89	1	402	28	24	11	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7171896--7172322	81	5.3	81	88	1	613	29	23	12	34	1.91
7171685--7172106	216	2.0	215	89	2	659	29	24	10	35	1.89
7171604--7172178	297	1.9	296	87	2	832	29	24	10	35	1.89
7172272--7172526	68	3.8	68	91	0	411	29	25	15	30	1.96
7172743--7172941	54	3.6	54	88	3	283	33	17	13	36	1.88
7173255--7173298	22	2.1	21	84	12	56	29	18	18	34	1.94
7177508--7178284	81	9.6	81	85	1	977	28	23	11	37	1.89
7177508--7178284	242	3.2	241	85	2	970	28	23	11	37	1.89
7177508--7178284	323	2.4	323	86	1	1013	28	23	11	37	1.89
7178247--7178474	67	3.4	68	87	1	325	31	23	14	30	1.94
7178228--7178474	135	1.8	133	85	1	350	31	23	13	31	1.93
7178703--7178895	54	3.6	54	79	11	229	32	18	14	34	1.91
7187927--7187979	21	2.5	21	85	11	81	35	16	9	37	1.82
7191140--7191172	2	17.0	2	93	6	59	51	0	0	48	1.00
7191161--7191219	23	2.5	23	83	8	66	47	1	8	42	1.44
7191208--7191274	9	7.6	8	79	17	55	34	1	2	61	1.20
7191227--7191271	3	15.0	3	95	0	81	31	0	2	66	1.04
7191904--7191971	30	2.3	30	82	2	93	50	4	16	29	1.64
7200485--7200524	2	20.0	2	100	0	80	50	0	0	50	1.00
7201964--7202099	65	2.1	64	83	4	166	32	17	20	29	1.96
7211127--7211152	10	2.6	10	100	0	52	76	7	15	0	0.99
7211128--7211178	19	2.7	19	76	11	59	74	13	11	0	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7211116--7211178	28	2.1	29	85	8	83	76	14	9	0	1.02
7215821--7215878	10	6.0	10	78	13	50	82	10	6	0	0.83
7215822--7215848	12	2.2	12	100	0	54	92	7	0	0	0.38
7215821--7215887	20	3.3	20	80	0	80	80	11	7	0	0.90
7215841--7215894	10	5.5	10	80	12	58	74	14	11	0	1.08
7215832--7215894	20	3.2	20	75	4	65	77	12	9	0	0.98
7215834--7215894	29	2.1	29	87	3	88	77	13	9	0	1.00
7220548--7220583	9	3.9	9	92	3	54	77	16	5	0	0.94
7220558--7220602	22	2.0	22	87	8	65	75	15	8	0	1.03
7225892--7225931	18	2.2	18	90	0	62	20	20	30	30	1.97
7227085--7227408	81	4.0	81	90	0	450	30	22	10	36	1.87
7227613--7227643	16	1.9	16	100	0	62	41	25	6	25	1.79
7232654--7233265	81	7.6	81	87	1	849	30	23	11	34	1.90
7233173--7233377	105	2.0	105	89	3	315	30	21	11	36	1.89
7233278--7233447	81	2.1	81	92	0	277	34	20	11	34	1.88
7233094--7233447	186	1.9	186	87	4	527	32	21	10	35	1.88
7235908--7235950	23	1.9	22	85	4	59	20	2	2	74	1.04
7237216--7237259	6	7.3	6	84	0	52	43	15	6	34	1.74
7237217--7237263	24	2.0	24	91	8	78	40	14	8	36	1.77
7238225--7241902	6	613.7	6	94	3	4986	47	20	2	30	1.62
7247880--7247951	22	3.2	22	78	9	67	40	5	8	45	1.57
7247875--7247958	24	3.6	23	75	16	75	42	4	7	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7249661--7249783	59	2.1	59	95	0	219	34	13	23	27	1.93
7252521--7252556	16	2.1	18	90	10	58	13	19	16	50	1.79
7256663--7257130	83	5.7	83	90	2	714	50	10	10	28	1.71
7258554--7258588	3	11.7	3	88	11	54	62	0	0	37	0.95
7258535--7258589	21	2.5	21	85	5	65	58	3	0	38	1.16
7263137--7263207	31	2.3	31	87	0	106	28	29	11	30	1.91
7267336--7267411	29	2.6	29	89	2	89	32	7	1	57	1.36
7267346--7267490	29	5.0	28	76	13	118	32	8	0	58	1.33
7267354--7267473	54	2.2	54	80	2	143	33	9	0	57	1.30
7267474--7267498	13	1.9	13	100	0	50	44	8	0	48	1.32
7267496--7267583	31	2.6	33	76	18	92	40	5	0	53	1.25
7267354--7267581	29	7.5	31	70	19	108	37	7	0	54	1.30
7267394--7267644	127	2.0	124	79	10	267	37	7	0	54	1.29
7267683--7267843	78	2.0	78	83	7	200	52	1	4	41	1.31
7267744--7267821	29	2.8	28	78	7	86	53	1	5	39	1.31
7267802--7267844	22	2.0	20	91	8	68	55	0	2	41	1.12
7267804--7267852	23	2.3	22	86	10	66	53	0	4	42	1.20
7270110--7270154	19	2.4	19	88	0	72	40	4	17	37	1.70
7274320--7274412	31	3.0	30	88	3	123	30	16	20	33	1.94
7274322--7274431	31	3.5	31	86	2	114	32	14	18	34	1.91
7295013--7295064	1	52.0	1	76	0	50	1	0	9	88	0.59
7295013--7295061	7	6.9	7	92	2	80	2	0	10	87	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7299734--7299797	12	5.2	12	90	5	92	1	0	6	92	0.45
7299734--7299788	21	2.7	20	94	2	92	0	0	5	94	0.31
7299734--7299797	16	3.9	16	89	6	101	1	0	6	92	0.45
7299734--7299788	1	55.0	1	88	0	83	0	0	5	94	0.31
7310250--7310316	33	2.0	34	85	11	93	50	5	0	43	1.26
7310439--7310477	16	2.3	17	82	8	53	46	0	5	48	1.24
7310486--7310536	5	9.6	5	81	14	50	54	1	0	43	1.11
7310233--7310537	11	27.1	11	65	22	79	50	5	2	41	1.41
7311651--7311690	21	2.0	20	95	5	71	32	0	0	67	0.91
7312324--7312370	2	23.5	2	100	0	94	51	0	0	48	1.00
7312634--7312692	27	2.2	26	79	11	66	40	0	0	59	0.97
7312920--7314168	646	1.9	650	90	2	1983	39	10	13	37	1.78
7329395--7329429	18	1.9	18	88	0	52	34	11	14	40	1.82
7329400--7329438	18	2.2	18	85	0	51	33	12	15	38	1.85
7333245--7333316	32	2.2	32	80	4	74	25	27	27	19	1.99
7335356--7335423	3	23.3	3	86	5	95	36	1	1	60	1.15
7335356--7335423	26	2.6	26	90	2	100	36	1	1	60	1.15
7335353--7335435	26	3.3	25	77	13	80	42	1	1	55	1.15
7336609--7336684	30	2.6	29	73	24	77	28	6	2	61	1.34
7336724--7336753	14	2.1	14	100	0	60	33	6	6	53	1.53
7336885--7336928	19	2.1	22	84	12	58	36	9	4	50	1.55
7336947--7337183	115	2.1	113	85	7	320	39	6	8	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7338573--7338643	36	2.0	36	88	5	108	42	14	12	30	1.82
7339217--7339245	13	2.2	13	100	0	58	17	13	6	62	1.52
7339277--7339342	14	4.7	14	73	0	51	15	12	12	60	1.59
7339324--7339362	20	2.0	20	84	0	51	17	10	7	64	1.48
7339625--7339708	42	2.0	42	83	4	107	50	13	17	19	1.78
7341720--7342073	121	2.9	121	96	0	638	29	16	20	33	1.94
7344010--7344155	75	1.9	75	91	0	238	32	18	19	29	1.95
7344983--7345138	54	2.9	55	85	6	212	39	13	21	25	1.90
7345194--7345249	29	2.0	27	86	13	69	25	21	16	37	1.93
7346195--7346989	45	17.6	45	93	1	1340	23	23	18	34	1.97

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