genome.fa.s7999.2.7.7.80.10.50.1000.48.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  48  of  50  ( 5918 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)
11282684--11282802	42	2.9	42	75	6	116	26	21	17	34	1.95
11283527--11283583	30	1.9	30	82	7	71	52	10	12	24	1.70
11283619--11283658	21	1.9	21	89	0	62	50	20	5	25	1.68
11283759--11283816	31	1.9	31	93	6	102	65	5	5	24	1.34
11286123--11286225	45	2.2	47	94	3	183	22	9	25	42	1.84
11293904--11294003	20	5.0	20	86	0	119	28	23	19	30	1.98
11293880--11294003	60	2.1	60	84	3	160	29	21	19	29	1.98
11293904--11294003	40	2.5	40	85	0	137	28	23	19	30	1.98
11294199--11294241	22	2.0	22	95	0	77	23	41	16	18	1.89
11294638--11294733	20	4.8	20	85	1	104	14	17	21	45	1.84
11294697--11294740	20	2.2	20	91	0	70	11	13	20	54	1.69
11296900--11297384	55	9.0	55	81	9	522	29	24	15	29	1.96
11296937--11297384	161	2.8	162	83	8	517	30	24	15	29	1.96
11296904--11297369	110	4.3	110	85	7	596	29	24	16	29	1.96
11297387--11297493	36	2.9	36	86	2	142	20	20	18	40	1.92
11297388--11297496	37	3.0	36	87	1	137	21	20	19	39	1.93
11298772--11298912	18	7.8	18	68	19	64	6	20	0	72	1.11
11298767--11298809	16	2.8	16	89	3	61	6	16	0	76	0.99
11298871--11298901	8	3.8	8	91	8	53	9	16	0	74	1.07
11308522--11308626	45	2.3	46	90	3	167	39	20	8	31	1.83
11315167--11315220	28	2.0	27	81	3	63	31	1	18	48	1.59
11315250--11315311	14	4.3	14	77	6	61	38	0	14	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11315410--11315463	20	2.7	20	79	0	63	46	25	16	11	1.80
11315457--11315499	20	2.2	20	83	4	52	27	20	23	27	1.99
11315506--11315762	20	13.4	20	78	11	270	24	19	23	32	1.98
11315526--11315668	74	1.9	74	91	2	234	23	20	23	32	1.98
11315545--11315804	54	4.7	54	80	8	299	24	18	23	33	1.96
11315464--11315688	94	2.4	93	90	2	351	24	20	22	32	1.97
11315507--11315762	114	2.2	114	87	2	363	25	19	23	32	1.97
11315526--11315762	94	2.5	90	84	8	271	24	19	23	32	1.97
11315547--11315804	74	3.5	74	75	10	199	24	17	23	34	1.96
11315779--11316044	140	1.9	140	99	0	523	42	15	13	28	1.85
11318162--11318197	14	2.5	14	90	4	54	5	22	22	50	1.70
11318387--11318440	24	2.2	24	93	0	90	40	20	18	20	1.91
11319260--11319327	20	3.4	20	91	0	91	26	20	25	27	1.99
11319294--11319367	20	3.7	20	89	3	96	28	20	16	35	1.94
11319875--11320473	300	2.0	300	96	0	1117	35	16	13	35	1.87
11321028--11321108	32	2.5	33	97	2	155	17	14	8	59	1.60
11329877--11329954	26	3.0	26	86	0	102	32	25	15	26	1.95
11329891--11329955	26	2.5	26	92	0	103	32	24	16	26	1.96
11339176--11339221	21	2.1	22	84	4	58	63	2	8	26	1.35
11340520--11340579	24	2.5	24	83	0	75	35	13	10	41	1.78
11347112--11347185	29	2.6	29	95	0	130	32	20	6	40	1.78
11352556--11352654	22	4.2	22	80	16	117	37	12	12	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11352585--11352632	15	3.3	15	72	16	55	37	8	12	41	1.73
11352556--11352655	51	2.0	51	97	0	191	37	12	12	39	1.79
11352578--11352643	29	2.3	29	94	0	114	37	13	9	39	1.77
11359627--11359681	28	1.9	29	85	10	78	61	1	0	36	1.06
11365771--11365804	16	2.1	16	89	10	52	50	2	2	44	1.32
11367649--11367806	78	2.0	78	97	0	298	45	15	13	24	1.83
11368522--11368665	41	3.5	43	76	15	126	33	16	18	31	1.93
11368608--11368768	81	2.0	81	80	2	180	30	19	16	32	1.95
11370009--11370053	21	2.1	21	87	0	63	22	8	31	37	1.85
11370068--11370123	29	2.0	28	86	10	78	28	8	17	44	1.79
11372509--11372534	12	2.2	12	100	0	52	42	0	11	46	1.40
11375717--11375838	55	2.2	56	83	4	158	17	26	20	36	1.94
11376045--11376106	31	2.0	31	96	0	115	20	9	30	38	1.85
11376076--11376259	43	4.3	43	78	4	183	28	15	23	32	1.95
11376216--11376328	43	2.6	41	72	14	102	21	15	24	38	1.93
11376732--11376803	21	3.4	21	86	0	99	0	36	19	44	1.51
11376752--11376825	33	2.2	33	83	4	87	0	37	18	43	1.51
11379324--11379690	42	8.8	42	86	3	485	33	19	19	26	1.96
11379320--11379733	42	10.0	41	83	5	415	33	19	19	27	1.96
11379308--11379690	125	3.1	125	91	2	592	33	19	19	27	1.96
11379324--11379733	166	2.5	167	86	5	519	33	19	19	27	1.96
11380256--11380416	41	3.9	42	84	7	188	32	16	14	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11380255--11380417	82	2.0	83	85	7	224	33	16	14	35	1.90
11380403--11380602	41	4.8	42	78	14	166	25	19	20	35	1.95
11380442--11380619	42	4.3	41	80	13	188	24	21	19	35	1.96
11380428--11380619	82	2.3	82	86	8	257	23	21	19	35	1.96
11385294--11385363	20	3.3	20	74	18	61	22	21	12	42	1.87
11388027--11388067	10	4.1	10	87	0	55	36	0	12	51	1.40
11388029--11388059	16	1.9	16	93	0	53	35	0	12	51	1.40
11393324--11393408	31	2.7	31	96	0	152	32	17	16	32	1.93
11394819--11394853	17	2.1	17	89	10	54	51	11	5	31	1.61
11394928--11395030	29	3.5	29	68	15	84	46	5	0	46	1.33
11396385--11396426	21	2.0	21	90	0	66	9	28	38	23	1.86
11398106--11398202	33	2.9	34	79	14	96	30	13	4	51	1.59
11398754--11398781	2	14.0	2	100	0	56	50	0	0	50	1.00
11398775--11398828	24	2.3	24	84	6	67	33	9	1	55	1.42
11398955--11399016	26	2.4	26	86	10	83	17	9	0	72	1.10
11401186--11401231	20	2.3	20	88	0	65	13	15	13	58	1.63
11401196--11401237	20	2.2	20	95	4	77	9	11	14	64	1.50
11404370--11404418	25	1.9	25	83	4	62	34	8	4	53	1.50
11406895--11407302	122	3.3	122	79	6	378	34	24	13	27	1.92
11411063--11411092	15	2.0	15	93	0	51	43	0	6	50	1.28
11411445--11411488	18	2.4	19	85	11	56	45	0	2	52	1.13
11412730--11412763	12	2.8	12	95	0	59	64	8	0	26	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11413607--11413651	19	2.4	19	85	3	56	33	0	6	60	1.23
11414854--11414878	13	1.9	13	100	0	50	40	0	8	52	1.31
11415805--11415855	26	1.9	27	84	4	68	60	9	9	19	1.55
11417075--11417142	3	22.3	3	75	21	54	72	0	0	27	0.85
11417074--11417138	15	4.6	15	92	7	102	72	0	0	27	0.85
11417162--11417556	37	10.8	37	81	11	433	45	6	2	46	1.39
11417388--11417441	26	2.1	26	92	0	90	46	5	1	46	1.37
11422676--11422745	35	2.0	35	88	2	106	61	7	14	17	1.54
11424940--11425194	45	5.6	45	88	1	332	35	9	23	31	1.87
11424940--11425141	22	9.0	23	64	14	107	32	9	25	32	1.89
11433122--11433153	15	2.1	15	94	0	55	71	0	0	28	0.86
11433177--11433231	25	2.2	26	86	3	76	43	3	1	50	1.30
11433205--11433384	38	4.6	38	81	8	193	42	4	3	49	1.39
11444678--11444736	30	2.0	31	86	6	86	33	5	16	44	1.70
11444952--11444993	21	2.0	21	95	0	75	23	21	28	26	1.99
11446578--11446609	17	1.9	16	93	6	55	21	9	6	62	1.47
11447869--11447931	32	2.0	32	87	0	90	23	26	30	19	1.98
11452689--11452727	19	2.0	20	85	5	53	66	2	12	17	1.35
11452790--11452842	22	2.3	24	72	21	60	67	3	3	24	1.23
11461591--11461684	20	4.6	20	79	15	104	34	20	21	24	1.97
11461587--11461684	41	2.4	41	94	0	178	33	20	21	24	1.97
11461589--11461700	21	5.4	21	80	9	106	33	21	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11461782--11461818	6	6.5	6	93	3	51	32	51	16	0	1.45
11462322--11462361	12	3.4	12	89	3	55	0	25	57	17	1.40
11462321--11462361	18	2.4	17	87	4	55	0	24	58	17	1.38
11462458--11462583	21	5.8	21	79	12	139	38	21	20	19	1.93
11462451--11462592	42	3.3	42	89	3	230	37	21	20	20	1.95
11462451--11462597	21	6.9	20	72	18	102	36	21	21	20	1.95
11463044--11463086	21	2.0	21	81	9	50	30	16	6	46	1.73
11463390--11463448	3	19.7	3	79	6	66	61	3	0	35	1.13
11468534--11468639	31	3.6	30	82	7	119	37	9	12	40	1.75
11468534--11468639	28	3.6	28	81	9	122	37	9	12	40	1.75

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