genome.fa.s7867.2.7.7.80.10.50.1000.13.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  13  of  18  ( 2128 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)
2333698--2334640	84	11.4	84	77	5	621	25	19	23	31	1.98
2334020--2334632	165	3.7	164	83	3	658	25	19	23	31	1.98
2335822--2335899	36	2.1	38	86	9	108	73	0	6	20	1.05
2335829--2335896	25	2.6	26	79	6	75	72	0	4	23	1.03
2335894--2335972	36	2.2	35	84	8	97	50	6	1	41	1.36
2335939--2336039	39	2.7	38	83	8	127	44	5	1	47	1.38
2335914--2336039	36	3.3	39	81	10	129	46	4	2	46	1.37
2336048--2336080	11	3.1	11	95	4	59	39	0	9	51	1.34
2336057--2336129	38	1.9	38	91	0	119	46	5	5	42	1.50
2336847--2336889	15	2.9	15	96	0	77	11	18	60	9	1.57
2337052--2337279	37	6.1	36	85	7	296	44	5	3	46	1.44
2337046--2337279	76	3.1	73	87	6	326	44	5	4	45	1.45
2337052--2337279	112	2.0	111	91	2	368	44	5	3	46	1.44
2338501--2338540	21	2.0	20	85	5	53	80	0	5	15	0.88
2338570--2338671	37	2.8	37	78	12	104	71	2	3	21	1.16
2338649--2338780	44	3.1	42	69	17	94	68	2	3	25	1.17
2338691--2338753	17	3.5	17	71	6	54	71	3	3	22	1.14
2338691--2338769	36	2.2	36	86	8	110	69	2	3	24	1.17
2340347--2340821	106	4.6	106	83	7	500	21	18	24	35	1.95
2341494--2341814	65	4.8	65	74	10	225	39	11	20	28	1.87
2341468--2341676	65	3.1	67	82	5	219	38	9	22	30	1.85
2341625--2341952	36	9.4	36	71	16	199	39	12	19	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2341571--2341829	138	1.9	138	86	0	374	40	13	20	26	1.89
2341637--2341735	37	2.7	36	84	3	117	39	16	23	21	1.92
2341663--2342039	102	3.7	102	87	2	427	39	12	18	29	1.88
2341866--2341952	37	2.4	36	88	1	129	40	12	20	26	1.88
2341663--2342039	203	1.9	204	80	2	454	39	12	18	29	1.88
2341765--2342039	102	2.7	102	90	1	428	37	12	19	30	1.88
2343686--2343751	28	2.3	27	80	14	71	6	13	3	77	1.08
2343711--2343760	26	1.9	26	87	0	73	4	16	2	78	1.00
2344984--2345012	7	4.1	7	100	0	58	58	13	13	13	1.63
2347038--2347133	12	8.1	12	70	23	53	64	0	3	32	1.09
2347066--2347149	37	2.2	38	85	8	118	65	0	3	30	1.10
2347186--2347215	15	2.0	15	100	0	60	53	0	0	46	1.00
2347179--2347233	17	3.3	17	90	7	78	54	1	0	43	1.10
2347179--2347217	2	20.0	2	89	5	62	51	2	0	46	1.14
2356221--2356334	2	58.0	2	96	3	214	50	0	0	49	1.00
2356485--2356519	2	17.5	2	100	0	70	48	0	0	51	1.00
2358262--2358301	19	2.1	19	85	0	53	42	2	17	37	1.63
2359986--2360035	20	2.5	20	96	0	91	40	16	8	36	1.77
2361897--2362011	24	4.8	24	83	4	135	14	12	13	59	1.62
2361919--2361991	10	5.9	14	69	26	56	12	13	13	60	1.60
2362185--2362265	23	3.5	23	84	3	108	12	11	19	56	1.65
2362177--2362283	47	2.3	47	88	0	160	13	13	17	56	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2368734--2368772	15	2.6	16	88	8	55	53	2	0	43	1.14
2368731--2368772	18	2.3	18	88	8	59	54	2	0	42	1.13
2368987--2369275	93	3.0	93	81	11	336	26	17	16	39	1.91
2369193--2369616	43	10.6	41	70	17	297	24	20	18	37	1.94
2369188--2369455	122	2.2	121	92	3	450	23	20	17	38	1.93
2369362--2369570	36	5.4	36	71	18	161	23	21	19	35	1.96
2369319--2369619	79	3.8	79	95	0	523	24	20	18	35	1.95
2369671--2369770	20	5.0	20	84	4	103	35	21	18	26	1.95
2369668--2369770	40	2.6	40	82	0	125	34	20	18	26	1.95
2375345--2375503	81	2.0	81	92	0	264	19	32	17	30	1.95
2375619--2375916	55	5.5	54	77	6	280	26	26	20	26	1.99
2375622--2375859	109	2.2	110	87	3	338	26	27	21	25	1.99
2375811--2375909	26	3.6	28	76	18	102	27	26	19	27	1.99
2375811--2375922	31	4.0	30	73	21	82	30	25	16	27	1.97
2375622--2375916	109	2.7	109	82	4	301	26	26	20	26	1.99
2379963--2379996	17	1.9	18	88	5	52	41	0	0	58	0.98
2380618--2380671	22	2.5	22	93	0	90	40	20	7	31	1.80
2383224--2383266	18	2.4	18	100	0	86	11	46	9	32	1.72
2385422--2385454	17	1.9	17	93	0	57	48	12	24	15	1.78
2385427--2385462	17	2.1	17	89	0	54	50	11	30	8	1.67
2388191--2388225	11	3.2	11	91	0	52	11	2	5	80	1.00
2389614--2389763	75	2.0	75	84	3	196	29	2	10	58	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2390364--2390409	19	2.3	20	88	3	67	19	4	0	76	0.96
2394566--2394600	18	1.9	18	100	0	70	51	5	25	17	1.67
2398166--2398202	18	2.1	18	89	0	56	27	18	0	54	1.44
2403747--2403804	15	3.9	15	86	0	89	37	0	18	43	1.51
2403747--2403832	45	1.9	45	83	4	111	38	3	19	38	1.69
2403747--2403844	45	2.2	45	81	3	108	37	5	19	37	1.74
2403963--2404024	23	2.7	23	79	2	70	22	29	17	30	1.97
2404030--2404099	24	3.0	24	89	2	106	18	21	22	37	1.94
2405061--2405100	21	1.9	21	100	0	80	32	25	22	20	1.98
2411342--2411372	12	2.5	13	94	5	55	29	12	6	51	1.65
2411833--2411872	18	2.2	18	100	0	80	25	15	27	32	1.95
2413115--2413150	12	2.7	14	83	16	58	44	8	5	41	1.58
2416109--2416156	24	2.0	23	88	4	69	43	4	0	52	1.20
2416118--2416163	24	1.9	24	86	0	65	45	4	0	50	1.21
2433919--2433960	18	2.3	18	91	0	66	16	16	19	47	1.83
2436606--2436643	20	2.0	19	85	10	51	50	10	21	18	1.76
2438098--2438137	19	2.1	19	85	0	53	52	7	7	32	1.58
2438238--2438268	12	2.5	13	89	10	55	35	6	9	48	1.62
2438310--2438340	12	2.5	13	89	10	55	35	6	9	48	1.62
2438225--2438373	72	2.1	73	98	1	291	25	22	4	47	1.69
2438242--2438406	72	2.3	72	86	3	199	29	21	4	44	1.71
2438443--2438481	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2440590--2440647	23	2.7	20	70	17	53	36	15	17	31	1.91
2442680--2442704	12	2.1	12	100	0	50	24	32	16	28	1.96
2447921--2448179	89	2.9	90	90	3	380	18	23	27	30	1.98
2452864--2453200	89	3.8	89	88	4	468	20	23	25	30	1.99
2457236--2457281	24	1.9	24	86	8	67	50	0	13	36	1.41
2458401--2458782	30	12.9	30	67	23	147	51	2	8	37	1.45
2458448--2458532	40	2.2	38	83	8	100	50	2	5	41	1.39
2458556--2458691	8	17.6	8	73	20	112	53	1	8	36	1.40
2458471--2458718	50	5.1	51	71	18	138	53	2	8	36	1.44
2458550--2458676	22	5.6	21	83	13	130	52	2	8	36	1.45
2458403--2458676	43	5.8	48	72	21	174	52	2	8	37	1.43
2458401--2458718	22	15.1	21	71	20	99	52	2	7	37	1.43
2458856--2459019	8	19.1	9	69	22	61	39	8	1	51	1.40
2458847--2458901	22	2.6	21	77	11	67	34	7	0	58	1.26
2458894--2459602	2	364.0	2	64	22	176	43	5	2	48	1.39
2459023--2459186	5	33.2	5	82	15	193	40	1	0	57	1.06
2459391--2459566	11	16.7	11	68	20	65	44	3	4	47	1.40
2459451--2459592	75	1.9	74	84	5	187	44	4	3	47	1.42
2467624--2467677	3	18.3	3	75	17	51	62	0	3	33	1.12
2468861--2468907	24	2.0	24	91	0	76	42	12	14	29	1.83
2471309--2471446	44	3.2	44	86	2	179	31	22	13	32	1.92
2478522--2478556	18	1.9	18	88	11	54	34	14	34	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2481423--2481548	47	2.8	44	83	9	155	38	7	22	30	1.83
2488580--2488712	47	2.9	44	84	9	169	37	7	21	33	1.82
2489501--2489557	18	3.1	18	78	12	71	70	0	8	21	1.14
2489951--2490004	27	2.1	25	86	6	72	74	3	7	14	1.18
2501656--2501702	22	2.1	22	100	0	94	23	29	23	23	1.99
2501828--2501961	3	44.7	3	86	5	191	62	1	0	35	1.04
2511640--2511784	72	2.0	72	100	0	290	37	23	12	26	1.90
2517000--2517046	21	2.2	21	84	0	58	21	23	17	38	1.93
2517008--2517049	21	2.0	21	90	0	66	21	21	21	35	1.96
2518586--2518617	17	1.9	16	93	6	55	71	0	6	21	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18