genome.fa.s7984.2.7.7.80.10.50.1000.62.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   57   58   59   60   61   62   63   64   
          65   

This is table  62  of  65  ( 7696 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)
12198981--12199056	33	2.3	34	93	2	127	13	22	18	46	1.83
12199162--12199199	14	2.7	15	84	12	53	47	18	0	34	1.49
12200574--12200684	42	2.7	41	78	8	127	23	18	37	19	1.94
12201175--12201250	20	3.8	20	91	0	89	40	19	17	22	1.91
12201175--12201256	40	2.0	40	88	0	119	40	19	18	21	1.92
12201199--12201270	20	3.6	20	92	0	108	34	22	18	25	1.96
12201296--12201443	20	7.8	20	77	11	141	20	18	19	40	1.92
12203312--12203380	20	3.5	20	90	2	113	50	23	14	11	1.75
12203715--12203780	22	3.0	22	81	0	87	21	13	37	27	1.91
12203977--12204070	20	4.7	20	86	2	143	20	21	20	38	1.94
12203959--12204070	41	2.8	40	86	2	152	20	21	21	36	1.95
12204060--12204112	21	2.5	21	93	0	88	35	16	24	22	1.95
12203977--12204091	61	1.9	61	87	0	167	24	20	20	34	1.96
12209917--12210054	21	6.8	21	69	7	70	35	25	18	20	1.95
12210022--12210250	20	11.4	20	82	5	239	37	25	17	18	1.93
12210605--12210679	20	4.1	19	70	20	70	44	17	22	16	1.87
12210669--12210786	53	2.2	53	96	3	220	13	23	17	44	1.85
12210688--12210786	20	5.4	19	83	14	136	14	22	17	46	1.83
12210893--12210929	14	2.6	14	91	0	65	45	21	0	32	1.52
12212855--12213027	19	9.6	19	76	12	150	46	23	19	10	1.81
12212949--12213005	14	3.7	14	75	20	51	43	22	22	10	1.84
12212930--12213022	33	2.8	33	93	0	159	47	21	20	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12212871--12213027	52	2.9	53	73	13	142	47	22	20	9	1.79
12213017--12213058	19	2.2	19	91	0	66	9	19	28	42	1.82
12213023--12213067	19	2.4	19	100	0	90	6	15	31	46	1.72
12213041--12213132	33	2.8	33	86	5	123	10	18	25	45	1.81
12213023--12213100	19	4.4	19	76	15	76	8	17	26	46	1.78
12215048--12215130	20	4.2	20	81	6	114	46	16	24	12	1.81
12215046--12215159	19	6.1	19	74	15	103	45	18	24	11	1.82
12215182--12215255	21	3.5	21	80	7	96	13	21	17	47	1.82
12215335--12215405	33	2.2	33	94	0	124	47	16	23	11	1.79
12215339--12215395	14	3.7	14	70	20	51	45	19	24	10	1.81
12215785--12215977	20	9.6	20	79	5	201	19	17	27	35	1.94
12217278--12217486	27	7.7	27	88	2	267	13	35	21	28	1.92
12218755--12218974	120	1.8	120	98	0	422	32	6	26	34	1.82
12222884--12222931	18	2.5	19	86	6	62	27	29	14	29	1.95
12223333--12223373	16	2.6	16	88	11	66	21	21	21	34	1.97
12223798--12223847	24	2.1	24	82	17	61	54	2	0	44	1.11
12223893--12223942	19	2.6	19	87	9	66	34	0	30	36	1.58
12223921--12223981	31	2.0	31	90	0	95	49	0	16	34	1.46
12223931--12223981	16	3.2	16	71	15	52	54	0	13	31	1.39
12224255--12224299	14	3.5	14	71	22	53	35	6	6	51	1.55
12224255--12224310	24	2.3	24	96	0	103	35	5	7	51	1.52
12225337--12225369	2	16.5	2	100	0	66	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12225369--12225398	2	15.0	2	100	0	60	50	0	0	50	1.00
12225410--12225451	19	2.2	19	86	0	57	38	16	4	40	1.70
12227440--12227521	42	2.0	42	82	0	101	42	9	7	40	1.66
12227929--12228014	10	8.4	10	69	23	54	13	11	15	59	1.62
12227931--12227991	24	2.5	24	86	5	70	13	13	14	59	1.63
12228379--12228466	23	4.0	23	77	15	87	13	6	14	64	1.47
12234260--12234331	37	2.0	37	86	8	103	33	22	25	19	1.97
12235828--12235862	18	1.9	18	88	0	52	20	17	34	28	1.95
12238101--12238139	20	2.0	21	85	10	55	30	0	28	41	1.57
12239823--12239858	19	1.9	19	94	5	65	47	5	11	36	1.63
12239917--12239964	19	2.5	19	83	10	71	54	0	25	20	1.45
12241589--12241670	39	2.1	39	88	0	119	30	28	19	21	1.98
12243089--12243244	65	2.4	64	82	5	172	32	17	22	28	1.96
12243556--12243589	12	2.7	13	90	9	61	44	5	8	41	1.60
12245349--12245386	12	3.0	13	84	7	60	47	5	13	34	1.65
12245892--12245962	23	3.2	23	70	11	67	30	21	21	26	1.98
12245887--12245990	44	2.4	44	90	3	165	29	20	21	28	1.98
12255026--12255068	22	2.0	21	82	13	52	25	27	2	44	1.66
12256447--12256813	54	6.8	54	86	5	494	32	16	17	32	1.93
12256447--12256806	162	2.2	163	90	4	559	32	16	17	33	1.92
12256779--12256846	33	2.1	33	97	0	127	27	16	26	29	1.97
12256725--12256902	87	2.0	87	94	0	311	29	16	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12256812--12256976	54	3.1	54	90	0	258	33	18	19	29	1.95
12256671--12256953	141	2.0	141	89	2	435	31	16	20	30	1.95
12260010--12260068	29	2.0	29	96	0	109	50	13	11	23	1.74
12265955--12265983	12	2.3	13	94	5	51	0	6	10	82	0.83
12266355--12266820	66	7.2	66	72	6	196	25	16	22	34	1.95
12266440--12266602	63	2.5	62	78	12	161	25	19	19	36	1.95
12266570--12266807	66	3.6	65	76	3	210	27	17	20	34	1.95
12266453--12267120	192	3.4	192	72	10	534	26	17	20	35	1.95
12266349--12267294	258	3.6	258	76	9	736	25	17	21	35	1.95
12266307--12267265	129	7.4	131	73	7	616	25	18	21	34	1.96
12271142--12271170	2	14.5	2	100	0	58	51	0	0	48	1.00
12272958--12272992	10	3.5	10	96	0	61	28	22	0	48	1.51
12273032--12273077	18	2.6	17	80	10	56	32	6	2	58	1.36
12274201--12274235	18	1.9	18	88	0	52	25	22	20	31	1.98
12274587--12274618	9	3.6	9	91	0	55	43	31	25	0	1.55
12274747--12274818	26	3.0	24	68	27	62	26	6	4	62	1.39
12275734--12275778	23	2.0	23	81	0	54	26	24	26	22	2.00
12276367--12276523	64	2.4	63	80	10	158	28	17	20	33	1.95
12282544--12282643	24	4.2	24	73	5	76	47	15	15	23	1.82
12285113--12285137	13	1.9	13	100	0	50	16	24	44	16	1.86
12285113--12285189	30	2.5	31	82	4	102	15	18	45	20	1.85
12287327--12287433	24	4.5	24	75	0	106	47	16	14	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12287327--12287435	48	2.3	48	78	0	128	47	16	15	20	1.82
12289906--12289930	13	1.9	13	100	0	50	16	24	44	16	1.86
12289906--12289982	30	2.5	31	82	4	102	15	18	45	20	1.85
12305244--12305269	2	13.0	2	100	0	52	50	0	0	50	1.00
12318914--12318966	23	2.2	24	86	6	72	33	22	18	24	1.97
12318946--12318994	18	2.7	18	90	0	71	28	28	24	18	1.98
12325732--12325796	33	2.0	33	90	6	105	35	23	16	24	1.95
12330879--12331152	136	2.0	136	93	1	469	28	11	31	28	1.91
12338838--12338862	13	1.9	13	100	0	50	52	0	0	48	1.00
12346666--12347290	126	5.0	125	88	4	942	23	22	20	33	1.97
12347451--12347500	23	2.2	23	82	7	57	52	0	16	32	1.44
12347713--12347820	34	3.2	32	82	10	126	38	3	5	51	1.43
12348341--12348392	21	2.5	21	84	12	79	21	25	34	19	1.96
12350171--12350271	31	3.3	31	78	9	84	59	0	0	40	0.97
12354948--12355269	159	2.0	159	90	1	511	37	10	20	31	1.86
12355261--12355296	4	8.5	4	93	6	54	27	0	0	72	0.85
12355258--12355335	3	25.3	3	89	10	90	30	0	0	69	0.89
12355706--12355751	17	2.7	17	80	12	58	26	4	0	69	1.07
12355705--12355751	13	3.6	13	80	8	51	25	4	0	70	1.05
12355799--12355852	27	2.0	26	86	13	74	37	0	0	62	0.95
12356809--12356883	39	1.9	38	83	2	96	33	9	34	22	1.86
12358923--12358983	13	4.8	13	90	9	99	77	4	16	1	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12359056--12359193	69	2.0	69	94	0	240	39	23	12	23	1.89
12360117--12360206	32	2.8	32	87	0	108	31	14	20	34	1.92
12360117--12360220	32	3.2	32	84	2	102	30	14	20	34	1.92
12361394--12361472	28	2.8	28	100	0	158	16	22	17	43	1.88
12361523--12361583	31	2.0	31	87	9	90	31	13	11	44	1.79
12361503--12361613	36	3.2	36	72	23	121	28	18	12	40	1.87
12365305--12365465	20	8.1	20	94	0	277	41	18	14	26	1.88
12365502--12365543	20	2.1	20	95	0	75	38	19	14	28	1.90
12365425--12365674	77	3.2	77	94	0	428	37	20	14	27	1.91
12365579--12365619	20	2.0	20	100	0	82	39	19	17	24	1.92

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   57   58   59   60   61   62   63   64   
          65