genome.fa.s8243.2.7.7.80.10.50.1000.34.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  34  of  49  ( 5786 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)
7100078--7100111	12	2.8	12	90	4	50	26	2	5	64	1.30
7101738--7101776	18	2.2	18	86	4	53	61	0	5	33	1.18
7101818--7101845	10	2.8	10	100	0	56	42	0	32	25	1.55
7102092--7102152	2	31.0	2	96	3	115	50	0	0	49	1.00
7102236--7102263	3	9.3	3	100	0	56	67	32	0	0	0.91
7111834--7111866	12	2.5	13	90	9	50	39	9	15	36	1.79
7112247--7112275	14	2.0	15	93	6	51	62	27	3	6	1.37
7112605--7112648	21	2.1	21	82	0	52	36	15	38	9	1.80
7113887--7113935	21	2.3	21	96	3	89	44	20	6	28	1.75
7114221--7114316	42	2.2	42	83	7	122	25	20	23	30	1.99
7114221--7114315	21	4.4	21	75	9	68	25	21	24	29	1.99
7120069--7120279	64	3.3	63	78	10	212	27	19	23	29	1.98
7126601--7126630	2	15.0	2	100	0	60	50	0	0	50	1.00
7128767--7128799	14	2.5	13	90	9	50	45	18	9	27	1.79
7132788--7132865	16	4.5	18	70	26	62	48	1	0	50	1.09
7132783--7132825	21	2.1	20	83	12	52	48	0	0	51	1.00
7132774--7132881	53	2.0	53	87	10	159	46	1	1	50	1.23
7132988--7133023	15	2.5	15	90	4	56	41	0	0	58	0.98
7132967--7133028	14	4.4	14	74	13	56	43	1	0	54	1.09
7132997--7133029	8	4.2	8	84	7	50	42	0	0	57	0.98
7135395--7135473	23	3.4	23	79	11	90	26	25	29	18	1.98
7135813--7135866	27	2.0	27	100	0	108	29	22	7	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7137772--7137813	19	2.2	19	95	0	75	33	23	19	23	1.97
7140422--7140473	21	2.6	21	77	19	58	50	3	19	26	1.65
7141395--7141438	23	1.9	23	95	0	79	27	22	27	22	1.99
7142494--7142534	21	2.0	21	90	9	66	21	31	34	12	1.91
7143938--7143995	22	2.7	21	70	17	55	1	20	44	32	1.62
7151509--7151560	21	2.5	21	80	0	59	28	26	15	28	1.96
7152604--7152643	21	1.9	21	90	10	64	30	27	20	22	1.98
7156199--7156299	45	2.2	45	91	0	157	31	23	6	37	1.82
7156311--7156353	20	2.2	20	86	0	59	58	18	4	18	1.56
7156415--7156544	59	2.2	59	83	2	154	30	25	15	29	1.96
7160455--7160561	51	2.3	43	84	12	124	51	9	3	35	1.52
7162177--7162206	15	2.0	15	93	0	51	50	0	3	46	1.18
7165878--7165917	20	1.9	20	85	10	53	30	10	0	60	1.30
7168442--7168482	20	2.0	21	95	4	75	53	0	19	26	1.45
7172555--7172618	10	6.2	10	76	5	56	10	12	17	59	1.61
7172565--7172626	17	3.8	17	81	12	85	9	11	19	59	1.58
7172566--7172628	31	2.0	31	100	0	126	9	9	19	61	1.53
7173849--7173887	18	2.2	18	85	0	51	7	25	30	35	1.84
7175451--7175540	22	4.0	22	85	4	108	18	27	30	23	1.98
7175451--7175540	45	2.0	46	84	2	119	18	27	30	23	1.98
7179350--7179389	21	1.9	21	85	10	55	35	7	2	55	1.42
7185748--7185807	29	2.0	31	90	6	97	35	6	16	41	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7185872--7185920	20	2.5	19	90	6	80	40	8	12	38	1.72
7185880--7185922	20	2.2	20	100	0	86	41	9	9	39	1.69
7185939--7185980	21	2.0	21	95	0	75	23	21	28	26	1.99
7190948--7190986	20	2.0	20	89	0	60	33	23	10	33	1.88
7192939--7192987	13	3.6	13	78	8	53	57	12	4	26	1.53
7193263--7193294	17	1.9	16	93	6	55	78	9	6	6	1.10
7206566--7206619	26	2.0	27	89	3	83	59	11	11	18	1.60
7211932--7211956	7	3.6	7	100	0	50	44	16	12	28	1.83
7215087--7215124	4	10.0	4	88	11	62	50	0	0	50	1.00
7217147--7217181	16	2.2	16	89	0	52	77	5	8	8	1.13
7225337--7225404	21	3.1	21	62	22	50	30	20	11	36	1.89
7225313--7225449	44	3.2	44	91	5	226	32	19	13	34	1.90
7225502--7225627	64	2.0	63	84	4	164	28	22	19	29	1.98
7225837--7225976	69	2.0	69	97	0	262	57	2	6	34	1.36
7225982--7226043	33	1.9	32	87	9	90	37	3	1	58	1.24
7229962--7230052	29	3.1	29	87	1	137	23	28	32	15	1.95
7230165--7230223	23	2.6	23	83	8	75	22	18	15	44	1.87
7230414--7230521	39	2.8	39	86	8	132	37	1	14	45	1.56
7230438--7230522	39	2.2	39	95	0	152	40	2	15	42	1.60
7230510--7230549	21	1.9	21	100	0	80	27	0	15	57	1.38
7230605--7230657	28	1.9	27	88	3	79	32	1	16	49	1.57
7230604--7230668	27	2.3	29	82	10	82	36	1	15	46	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7230786--7230845	29	2.0	30	93	3	104	38	0	5	56	1.21
7230874--7230913	21	1.9	21	100	0	80	27	0	15	57	1.38
7231158--7231184	4	6.8	4	100	0	54	25	0	22	51	1.48
7233351--7233413	24	2.6	25	72	20	53	50	7	0	41	1.31
7233366--7233448	34	2.4	35	85	6	114	44	9	1	44	1.44
7233396--7233534	23	5.7	23	72	14	82	44	10	2	42	1.51
7233396--7233485	26	3.6	26	86	10	116	43	8	2	45	1.47
7233396--7233555	49	3.2	49	76	13	164	45	10	1	41	1.49
7235454--7235550	20	5.2	20	72	18	100	46	17	24	11	1.81
7235452--7235516	21	3.1	21	82	4	96	47	15	26	10	1.78
7235501--7235557	14	3.7	14	75	20	60	43	22	24	8	1.81
7235452--7235574	33	3.5	33	90	8	165	46	18	24	10	1.81
7235602--7235694	21	4.6	20	78	7	107	15	20	17	47	1.83
7235774--7235844	33	2.2	33	94	0	124	47	16	23	11	1.79
7236224--7236375	20	7.6	20	85	2	189	19	19	27	32	1.96
7236849--7236972	49	2.6	48	93	5	207	45	11	0	42	1.45
7236814--7237101	109	2.7	106	84	5	355	45	10	1	43	1.46
7236909--7237053	21	7.2	20	67	22	81	45	11	0	42	1.40
7236904--7237074	39	4.3	39	65	16	109	45	11	0	43	1.40
7236894--7237084	60	3.2	60	98	1	364	43	12	0	43	1.41
7240222--7240265	20	2.1	22	83	8	56	52	13	0	34	1.41
7241874--7241913	21	1.9	21	100	0	80	57	15	0	27	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7241901--7241985	39	2.2	39	97	0	161	42	16	2	38	1.61
7241912--7242009	39	2.5	37	85	9	133	44	15	2	37	1.58
7242232--7242287	23	2.4	23	84	0	76	44	12	17	25	1.84
7242409--7242493	29	2.9	29	83	0	107	16	29	29	24	1.97
7245097--7245163	12	5.6	12	69	13	57	35	17	10	35	1.85
7245087--7245174	24	3.7	23	92	3	140	31	15	11	40	1.83
7245822--7245854	17	2.0	17	88	5	50	57	12	9	21	1.62
7252948--7253073	45	2.8	44	89	2	180	27	11	23	37	1.90
7262700--7262772	18	4.2	17	71	20	62	75	1	17	5	1.07
7262700--7262764	18	3.5	19	76	17	66	76	1	16	4	1.02
7264141--7264599	51	8.8	51	86	7	564	28	15	27	28	1.96
7264136--7264653	51	9.9	55	87	4	255	28	16	27	28	1.97
7264458--7264689	110	2.1	111	79	4	245	27	17	24	31	1.97
7267380--7267454	18	4.3	18	70	14	59	34	10	10	44	1.74
7271487--7271559	32	2.4	31	78	14	82	41	1	4	53	1.28
7272588--7272621	3	11.3	3	87	0	50	38	32	29	0	1.58
7272588--7272620	9	3.7	9	95	0	57	39	33	27	0	1.57
7282573--7282610	19	2.1	19	85	5	51	34	2	0	63	1.09
7283131--7283176	15	2.8	16	80	12	58	67	0	2	30	1.03
7284643--7284688	24	2.0	24	91	4	76	56	13	17	13	1.67
7285190--7285240	3	17.0	3	79	0	57	43	0	0	56	0.99
7285178--7285243	15	4.9	14	78	19	77	42	1	0	56	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7285184--7285234	24	2.1	24	92	0	84	45	1	0	52	1.12
7286443--7286492	25	2.0	25	84	0	64	22	4	6	68	1.29
7288210--7288297	46	1.9	46	88	4	133	38	10	18	32	1.84
7293221--7293283	32	1.9	33	90	3	101	44	19	17	19	1.87
7296071--7296304	75	3.2	74	77	8	187	32	17	21	29	1.96
7298188--7298249	29	2.1	29	90	6	97	20	17	24	37	1.94
7298228--7298666	73	6.0	73	91	0	682	28	18	20	31	1.97
7298622--7298907	131	2.2	129	87	3	394	31	20	17	30	1.95
7299059--7299104	3	15.0	3	86	4	65	39	0	0	60	0.97
7300327--7300376	25	2.0	25	88	0	73	20	6	6	68	1.33

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