genome.fa.s8094.2.7.7.80.10.50.1000.29.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  29  of  43  ( 5090 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)
6124568--6124612	18	2.5	19	86	10	60	15	8	4	71	1.28
6128437--6128512	36	2.1	36	85	7	100	47	1	3	47	1.29
6140631--6140697	29	2.2	31	76	5	75	29	17	8	43	1.80
6143275--6143312	17	2.3	17	90	4	60	36	0	5	57	1.21
6146057--6146128	38	1.9	38	94	2	128	38	36	11	13	1.81
6146680--6146714	14	2.5	14	90	0	52	37	2	8	51	1.47
6146832--6146885	20	2.6	20	72	16	56	44	0	0	55	0.99
6146862--6146931	14	5.0	14	70	11	54	45	1	2	50	1.25
6146895--6146958	33	1.9	33	84	6	85	53	0	3	43	1.16
6146975--6147052	33	2.4	34	74	20	85	42	1	3	52	1.27
6147169--6147227	23	2.5	23	81	8	57	44	0	1	54	1.10
6148001--6148065	12	5.1	12	71	20	51	33	1	1	63	1.13
6147995--6148028	17	1.9	18	94	5	61	32	0	2	64	1.08
6147995--6148065	29	2.5	30	82	13	96	33	1	1	63	1.12
6149735--6149795	27	2.3	27	79	0	77	16	39	14	29	1.88
6150575--6150621	22	2.1	22	100	0	94	46	12	4	36	1.62
6151856--6151981	50	2.5	50	82	5	155	16	33	26	23	1.96
6152265--6152486	111	2.0	111	94	0	390	36	9	10	44	1.71
6154031--6154072	21	2.0	21	90	0	66	23	47	19	9	1.78
6161150--6161180	9	3.6	9	95	4	55	87	0	0	12	0.55
6161147--6161206	9	6.7	9	80	12	52	78	0	5	16	0.92
6162399--6162470	17	4.2	16	81	12	81	38	13	8	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6162863--6162933	25	2.8	25	97	0	133	36	23	16	22	1.94
6164904--6164960	21	2.9	19	79	18	64	50	3	28	17	1.62
6166151--6166203	17	3.1	17	83	5	72	39	15	5	39	1.70
6166605--6166659	25	2.2	25	96	0	101	32	21	20	25	1.97
6171475--6171550	31	2.5	31	93	0	134	23	17	15	43	1.87
6174207--6174269	22	2.7	22	80	11	63	52	1	0	46	1.10
6174238--6174285	15	3.2	16	88	8	66	62	0	0	37	0.95
6174228--6174307	23	3.6	23	77	11	69	62	1	0	36	1.03
6174236--6174284	7	6.7	7	79	9	53	59	0	0	40	0.98
6174243--6174307	15	4.4	15	79	12	64	64	1	0	33	1.03
6175003--6175050	21	2.2	22	85	3	62	22	14	22	39	1.91
6191640--6191714	31	2.4	31	84	4	89	54	8	0	37	1.30
6192608--6192640	13	2.5	13	100	0	66	33	6	30	30	1.82
6192721--6192751	4	7.8	4	100	0	62	25	0	22	51	1.48
6201035--6201424	9	42.6	9	65	23	92	49	5	3	41	1.43
6201053--6201190	26	5.2	27	70	24	82	52	5	2	39	1.38
6201035--6201129	16	6.2	16	69	22	71	55	4	1	38	1.26
6201057--6201149	43	2.2	43	82	7	118	56	5	2	35	1.34
6201237--6201432	20	9.8	20	74	14	145	47	7	2	42	1.44
6201279--6201333	26	2.0	28	86	6	78	45	7	3	43	1.49
6201355--6201442	11	8.6	11	76	14	91	51	10	0	38	1.36
6201237--6201466	61	3.8	61	76	10	195	46	6	3	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6201340--6201442	9	10.8	9	72	20	59	49	8	0	40	1.40
6201035--6201442	2	202.5	2	63	21	61	49	6	3	41	1.44
6201305--6201442	41	3.4	41	83	11	151	48	7	1	42	1.39
6204441--6204494	15	3.4	15	72	22	56	59	1	1	37	1.19
6208485--6208522	13	2.9	13	88	7	51	52	0	0	47	1.00
6211384--6211414	16	1.9	16	93	0	53	29	6	9	54	1.57
6212401--6212458	28	2.1	28	100	0	116	22	6	18	51	1.70
6213547--6213640	15	6.3	15	75	7	66	36	17	8	38	1.80
6219099--6219163	23	2.9	23	93	2	105	35	23	20	21	1.96
6219179--6219240	25	2.5	25	81	2	81	30	24	25	19	1.98
6222543--6222571	6	4.8	6	100	0	58	86	0	0	13	0.58
6225499--6225543	18	2.5	17	79	10	54	60	2	11	26	1.42
6233503--6233569	26	2.8	23	84	13	82	82	8	8	0	0.86
6233502--6233565	33	1.9	33	87	6	94	79	10	9	0	0.93
6233503--6233566	17	3.8	17	76	15	71	81	9	9	0	0.88
6233503--6233576	13	5.8	13	67	22	50	79	10	9	0	0.93
6241011--6241121	41	2.7	41	83	1	134	34	7	18	40	1.78
6241066--6241265	82	2.4	81	80	4	222	33	14	17	35	1.90
6241066--6241259	41	4.8	40	71	7	140	32	13	17	35	1.89
6245805--6245951	60	2.6	56	79	10	170	43	8	4	43	1.54
6245827--6245939	60	1.9	60	88	3	174	41	8	5	44	1.58
6245977--6246010	14	2.5	13	86	9	50	50	0	8	41	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6246005--6246081	40	2.1	37	81	13	88	48	5	2	44	1.39
6246588--6246622	18	1.9	18	88	0	52	17	14	37	31	1.89
6263539--6263582	18	2.4	18	84	0	52	25	13	4	56	1.56
6267446--6267497	24	2.1	26	85	7	72	55	11	0	32	1.36
6269669--6269855	100	1.9	99	81	8	227	33	28	17	20	1.96
6272270--6272296	14	1.9	14	100	0	54	33	7	29	29	1.85
6273321--6273493	89	1.9	89	92	0	292	20	13	12	53	1.72
6273941--6274053	19	5.8	19	79	6	102	38	23	11	27	1.89
6273941--6274039	39	2.5	39	91	1	162	39	23	12	25	1.89
6273908--6274053	20	7.4	20	74	9	113	36	22	13	27	1.92
6274793--6274826	12	2.8	12	90	0	50	55	29	0	14	1.40
6275181--6275216	9	4.0	9	88	0	54	75	0	22	2	0.94
6277587--6277636	20	2.5	20	96	0	91	42	24	20	14	1.88
6277775--6277824	25	2.0	25	88	0	73	28	10	20	42	1.84
6278199--6278233	18	1.9	18	88	0	52	31	5	11	51	1.61
6278545--6278631	39	2.2	39	93	0	147	45	19	14	19	1.85
6278842--6278888	20	2.3	20	96	0	85	17	19	25	38	1.92
6280378--6280432	21	2.6	22	82	8	78	21	23	32	21	1.98
6280398--6280493	21	4.7	21	75	11	83	23	17	32	26	1.97
6282756--6282784	13	2.2	13	100	0	58	79	13	6	0	0.93
6282757--6282790	13	2.8	12	91	8	52	76	14	8	0	1.01
6282993--6283040	22	2.2	22	88	0	69	25	14	39	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6283171--6283335	20	8.2	20	80	7	174	18	16	23	41	1.89
6283328--6283367	21	1.9	21	100	0	80	42	17	20	20	1.89
6288030--6288055	2	13.0	2	100	0	52	50	0	0	50	1.00
6291680--6291747	22	3.0	23	80	4	84	27	25	25	22	1.99
6291763--6291975	103	2.1	103	95	0	381	36	23	13	26	1.92
6293347--6293406	20	2.9	21	90	7	95	18	26	25	30	1.98
6296332--6296456	46	2.6	49	85	12	179	11	6	15	67	1.41
6297378--6297404	2	13.5	2	100	0	54	51	0	0	48	1.00
6299863--6299918	14	4.3	14	82	17	75	8	14	25	51	1.70
6299864--6299938	24	3.1	23	90	3	96	12	12	21	54	1.69
6300665--6300739	10	7.7	10	69	21	61	9	12	21	57	1.62
6300671--6300735	16	4.1	16	95	0	121	7	12	23	56	1.61
6300805--6300837	16	2.1	16	100	0	66	6	12	24	57	1.57
6301761--6301793	15	2.3	15	94	5	59	15	3	0	81	0.80
6302762--6302907	60	2.5	59	78	11	156	32	17	17	32	1.93
6306147--6306182	2	18.0	2	100	0	72	50	0	0	50	1.00
6306591--6306796	78	2.6	76	85	3	268	35	22	25	16	1.95
6306591--6306775	39	4.7	39	88	0	262	36	22	25	15	1.94
6310362--6310547	39	4.7	39	78	5	151	36	22	25	16	1.94
6315091--6315151	28	2.2	29	82	5	72	9	16	14	59	1.61
6320148--6320350	39	5.2	39	80	0	219	35	19	25	20	1.95
6323964--6324132	39	4.3	38	77	5	153	33	22	26	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6323964--6324132	78	2.2	78	81	4	198	33	22	26	17	1.96
6324810--6324869	25	2.4	25	97	0	111	26	18	33	21	1.96
6326822--6326852	14	2.2	14	94	0	53	45	0	0	54	0.99
6335738--6335853	59	2.0	59	81	6	137	33	16	13	36	1.88
6337548--6338523	218	4.4	219	86	1	1240	32	26	15	25	1.96
6341520--6341620	35	2.9	34	76	8	96	31	16	6	44	1.74
6343260--6343340	5	16.0	5	77	16	62	75	3	4	16	1.12
6343249--6343340	8	10.3	9	69	20	52	75	3	4	17	1.11
6343474--6343557	43	1.9	44	97	2	161	77	4	4	13	1.09
6343491--6343557	21	3.3	19	66	18	53	77	5	5	10	1.11

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