genome.fa.s190.2.7.7.80.10.50.1000.48.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  48  of  62  ( 7381 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)
11135584--11135635	19	2.7	19	93	0	95	32	17	28	21	1.96
11135539--11135696	83	1.9	83	81	10	189	33	17	24	24	1.96
11135688--11135750	20	2.9	22	84	15	87	31	19	22	26	1.97
11137294--11137353	23	2.6	23	89	0	93	18	20	26	35	1.95
11137706--11137747	2	20.5	2	95	4	75	47	0	2	50	1.14
11139423--11139464	22	1.9	22	85	9	59	71	11	4	11	1.29
11139419--11139469	20	2.4	21	78	18	61	70	11	5	11	1.32
11139859--11139929	23	3.1	23	93	0	124	21	23	16	38	1.93
11144751--11144828	29	2.7	29	87	0	120	23	14	26	35	1.93
11144983--11145017	9	3.8	9	88	3	52	11	22	2	62	1.41
11152342--11152371	15	2.0	15	100	0	60	26	0	26	46	1.53
11156675--11156760	24	3.3	24	65	20	64	36	15	17	31	1.91
11156670--11156784	55	2.1	55	100	0	230	38	13	17	30	1.89
11159539--11159649	55	2.0	55	100	0	222	33	19	21	25	1.97
11159908--11159974	23	3.0	22	82	4	89	26	22	22	28	1.99
11161318--11161453	41	3.3	41	66	15	125	33	15	25	25	1.95
11161277--11161472	84	2.3	84	94	3	342	35	14	23	27	1.93
11161820--11161851	15	2.1	15	100	0	64	25	6	18	50	1.70
11161907--11162505	54	11.1	54	90	1	860	34	16	18	31	1.93
11165949--11166010	23	2.7	23	85	7	90	19	29	24	27	1.98
11166270--11166335	2	34.0	2	93	6	118	50	0	0	50	1.00
11170887--11170969	23	3.6	23	91	0	130	19	30	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11173091--11173170	41	2.0	41	84	0	106	33	6	26	33	1.81
11175841--11175900	23	2.6	23	86	0	84	16	26	28	28	1.97
11176089--11176185	48	2.0	49	96	4	180	37	6	21	35	1.79
11176311--11176343	2	16.5	2	93	0	57	45	3	0	51	1.16
11177512--11177545	17	2.0	17	100	0	68	35	5	35	23	1.79
11180679--11180798	64	1.9	64	82	6	154	24	17	21	36	1.94
11183438--11183486	20	2.5	20	96	0	89	44	12	20	22	1.84
11185737--11185841	24	4.4	24	71	4	86	48	16	12	22	1.79
11187065--11187099	18	1.9	18	88	0	52	28	11	0	60	1.32
11190392--11190606	106	2.0	108	98	1	416	30	14	25	28	1.95
11192416--11192460	20	2.2	20	84	0	54	28	8	37	24	1.86
11192813--11192844	15	2.1	15	100	0	64	25	6	18	50	1.70
11192898--11193065	54	3.1	54	92	1	266	35	17	17	29	1.93
11193108--11193139	2	16.5	2	93	6	57	46	0	0	53	1.00
11197985--11198021	8	4.6	8	96	0	56	13	18	13	54	1.71
11199139--11199223	14	6.2	14	74	14	54	80	5	14	0	0.90
11199141--11199192	26	2.1	23	86	10	68	78	3	17	0	0.89
11199149--11199222	27	2.8	25	80	10	76	79	6	13	0	0.91
11199150--11199223	26	2.7	27	81	10	80	79	6	13	0	0.91
11199136--11199223	40	2.2	40	84	10	117	79	6	13	0	0.92
11200474--11200561	42	2.1	42	95	4	160	25	30	23	20	1.98
11200672--11201734	529	2.0	530	90	1	1668	33	24	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11200672--11201734	106	10.0	106	93	0	1628	33	24	18	23	1.96
11204004--11204028	2	12.5	2	100	0	50	48	0	0	52	1.00
11204486--11204798	54	5.8	54	80	3	290	34	14	17	33	1.90
11204484--11204760	108	2.6	108	85	2	351	33	14	18	33	1.91
11204506--11204798	162	1.8	162	85	3	419	34	13	17	34	1.89
11204484--11204798	108	2.9	108	82	3	350	34	14	18	33	1.91
11211392--11211455	21	3.0	21	82	13	69	31	20	20	28	1.97
11211411--11211467	21	2.7	21	89	5	80	28	21	22	28	1.99
11214580--11214671	23	4.0	23	75	0	85	36	22	20	19	1.95
11215488--11215535	22	2.2	22	96	0	87	35	27	25	12	1.92
11218511--11218593	23	3.8	21	74	13	62	21	9	22	45	1.81
11218537--11218610	21	3.4	22	81	5	78	21	10	24	43	1.84
11218500--11218594	21	4.4	21	73	12	68	21	10	24	44	1.83
11218599--11218646	24	2.0	24	83	0	60	16	14	22	45	1.84
11218608--11218654	24	2.0	24	82	0	58	17	14	23	44	1.85
11234643--11234734	23	4.0	23	84	2	105	32	23	22	20	1.98
11235376--11235535	62	2.5	65	82	8	172	26	19	20	33	1.97
11237287--11237332	20	2.3	20	85	10	60	36	0	28	34	1.58
11237499--11237546	23	2.1	23	96	0	87	43	25	14	16	1.86
11238493--11238570	24	3.4	24	87	6	110	32	17	24	25	1.97
11239514--11239555	2	20.5	2	95	4	75	47	0	2	50	1.14
11239515--11239588	28	2.5	30	81	14	84	41	0	12	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11239511--11239612	30	3.5	31	78	14	92	38	0	13	48	1.43
11240576--11240608	2	16.5	2	100	0	66	51	0	0	48	1.00
11240816--11240921	21	5.0	21	69	8	70	20	15	27	36	1.92
11240935--11240983	24	2.0	24	88	0	71	16	20	26	36	1.93
11243529--11243567	15	2.6	15	80	15	53	30	30	12	25	1.93
11245030--11245075	21	2.1	22	92	4	76	26	30	23	19	1.98
11245846--11245908	31	2.0	31	90	6	101	36	15	17	30	1.91
11248613--11248713	21	4.8	21	70	10	62	23	15	23	36	1.94
11255304--11255367	23	2.9	22	75	13	69	23	17	25	34	1.96
11255310--11255384	21	3.4	22	75	5	71	22	14	24	38	1.92
11262362--11262411	21	2.4	21	90	6	75	24	10	26	40	1.86
11262459--11262499	21	2.0	21	90	0	64	19	17	26	36	1.94
11263775--11264382	61	9.9	61	85	1	775	35	13	21	29	1.91
11269692--11269729	3	12.7	3	83	10	51	0	36	0	63	0.95
11269688--11269729	15	2.8	15	96	0	75	0	35	0	64	0.94
11270533--11270592	23	2.6	23	89	0	84	18	28	28	25	1.98
11273643--11273677	17	2.1	17	100	0	70	48	5	34	11	1.63
11275149--11275223	20	3.7	19	77	13	69	29	22	25	22	1.99
11276066--11276125	23	2.6	23	86	0	75	20	26	25	28	1.99
11296166--11296203	20	2.0	19	90	10	60	34	15	26	23	1.95
11299012--11299072	26	2.4	26	83	8	72	24	24	27	22	2.00
11299767--11299809	21	2.0	21	90	0	68	16	23	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11305195--11305240	20	2.3	20	92	0	74	28	23	28	19	1.98
11305823--11305864	22	1.9	22	90	0	66	26	21	23	28	1.99
11308050--11309137	545	2.0	545	98	0	2095	37	11	15	35	1.84
11311094--11311143	25	2.0	25	84	7	66	38	8	24	30	1.84
11312937--11312980	22	2.0	23	86	4	63	43	2	0	54	1.12
11313013--11313073	21	3.0	21	73	9	63	47	0	0	52	1.00
11314343--11314464	64	1.9	64	82	0	154	35	20	18	25	1.95
11314491--11314571	24	3.4	24	100	0	162	24	28	28	18	1.98
11315119--11315214	18	5.1	19	75	9	106	20	19	29	30	1.97
11315119--11315214	38	2.5	38	100	0	192	20	19	29	30	1.97
11321352--11321520	64	2.6	63	81	5	169	34	20	19	26	1.96
11322084--11322118	18	1.9	18	94	0	61	20	20	34	25	1.96
11328791--11328858	26	2.7	26	97	2	129	33	8	8	48	1.65
11333613--11333672	30	2.0	30	100	0	120	43	16	6	33	1.74
11355168--11355367	53	3.8	53	87	2	267	24	27	19	29	1.98
11355773--11355871	42	2.3	43	96	1	182	36	24	15	24	1.93
11355736--11355871	42	3.3	43	86	7	174	36	22	16	24	1.94
11355824--11356036	80	2.7	80	93	0	345	30	22	16	30	1.96
11356004--11356072	22	3.2	22	68	15	63	31	23	17	27	1.97
11355996--11356078	42	2.0	42	92	0	139	31	24	19	25	1.98
11356294--11356400	42	2.6	41	80	2	133	28	22	23	25	1.99
11356116--11356517	214	1.9	214	93	0	687	31	18	15	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11373079--11373299	105	2.1	104	82	0	262	39	23	14	23	1.90
11374770--11374850	22	3.7	22	88	3	119	19	25	23	30	1.98
11378151--11378366	105	2.1	104	83	0	261	40	22	12	24	1.89
11378702--11378744	22	1.9	23	81	13	54	23	18	9	48	1.76
11379836--11379899	22	3.0	22	81	4	85	20	26	21	31	1.98
11383736--11383940	57	3.6	57	89	1	286	18	18	29	34	1.94
11383736--11383965	57	4.0	57	87	2	282	17	18	30	33	1.94
11385953--11385992	12	3.2	12	82	6	53	20	42	22	15	1.88
11385988--11386025	17	2.2	17	90	0	58	13	28	31	26	1.93
11388582--11388689	57	1.9	57	84	0	144	12	19	29	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   57   58   59   60   61   62