genome.fa.s8242.2.7.7.80.10.50.1000.41.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   66   67   68   69   70   71   72   73   

This is table  41  of  73  ( 8740 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)
9911731--9911938	65	3.2	64	79	12	194	27	16	24	31	1.97
9918492--9918531	21	1.9	21	85	10	55	35	10	2	52	1.48
9920568--9920618	19	2.7	19	85	8	70	25	15	35	23	1.94
9920463--9920620	65	2.5	64	82	6	187	27	16	25	29	1.97
9921019--9921069	23	2.2	24	89	3	77	49	9	0	41	1.36
9921125--9921151	13	2.1	13	100	0	54	44	0	0	55	0.99
9928097--9928412	154	2.0	155	98	1	616	42	4	19	33	1.71
9929305--9929352	2	24.0	2	100	0	96	50	0	0	50	1.00
9932635--9932929	46	6.4	46	89	0	455	22	22	12	42	1.87
9932635--9932955	26	13.7	25	66	21	162	23	21	12	42	1.87
9933378--9933576	95	2.1	95	85	1	274	26	23	16	34	1.95
9934453--9934844	54	7.3	54	90	0	606	33	19	18	28	1.96
9935285--9935348	28	2.3	28	100	0	128	28	35	18	17	1.93
9935362--9935521	65	2.5	63	82	6	196	32	24	16	26	1.96
9941319--9941413	21	4.4	21	76	11	70	28	24	22	25	1.99
9941338--9941414	21	3.5	22	75	12	86	25	22	25	25	2.00
9941319--9941413	44	2.2	42	87	7	129	28	24	22	25	1.99
9942966--9943009	21	2.1	21	83	8	54	9	38	15	36	1.80
9944041--9944223	65	2.8	63	78	7	190	30	22	18	27	1.97
9957667--9958119	224	2.0	227	96	2	842	38	19	11	30	1.86
9958218--9958366	72	2.1	72	97	0	280	18	40	19	21	1.92
9972584--9972619	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9982022--9982149	12	10.8	12	70	5	71	27	6	27	39	1.80
9982012--9982148	24	5.8	24	85	2	134	27	6	26	40	1.80
9988944--9989013	12	5.9	11	74	14	59	22	4	31	41	1.73
9988940--9989015	24	3.2	23	87	7	107	25	6	28	39	1.81
9989098--9989137	20	2.0	20	85	0	53	32	17	10	40	1.83
9992306--9992481	90	2.0	88	92	2	289	44	6	10	38	1.65
9995381--9996026	182	3.5	182	89	0	927	42	13	16	27	1.86
9997876--9997931	24	2.5	22	83	13	69	39	0	7	53	1.28
9998169--9998211	9	4.8	9	85	0	59	37	6	51	4	1.50
9998245--9998273	15	1.9	15	100	0	58	20	6	48	24	1.74
9998247--9998282	15	2.4	15	90	0	54	22	11	44	22	1.84
9998638--9998676	18	2.2	18	95	0	69	56	0	35	7	1.28
9998978--9999013	17	2.1	17	100	0	72	50	8	11	30	1.67
10000164--10000213	19	2.6	19	93	0	82	30	2	10	58	1.42
10000487--10001109	203	3.1	199	91	3	1022	35	16	15	32	1.90
10002787--10002837	20	2.5	20	96	0	93	39	13	17	29	1.88
10003072--10003229	86	1.8	86	86	0	226	31	15	12	41	1.83
10005422--10005468	14	3.1	15	79	14	60	65	0	0	34	0.93
10005422--10005469	17	3.1	17	82	17	68	66	0	0	33	0.92
10007566--10007611	24	1.9	23	82	8	56	63	4	26	6	1.38
10009151--10009183	17	2.0	17	94	5	59	30	6	3	60	1.36
10009403--10009441	20	2.0	20	85	9	55	35	10	5	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10013784--10013838	25	2.2	25	87	6	76	34	21	1	41	1.64
10015211--10015318	46	2.4	45	81	4	128	34	21	18	25	1.96
10021097--10021191	23	4.4	21	76	11	79	29	26	20	24	1.99
10021116--10021192	23	3.5	23	77	8	88	27	24	23	24	2.00
10021096--10021191	44	2.2	42	83	7	122	30	26	19	23	1.98
10023795--10023823	12	2.3	13	94	5	51	31	41	0	27	1.56
10028761--10028802	21	2.0	21	100	0	84	19	33	19	28	1.96
10029311--10029343	12	2.7	13	86	13	52	36	15	6	42	1.71
10032356--10032390	16	2.2	16	94	0	61	48	28	5	17	1.69
10033607--10033631	5	5.0	5	100	0	50	0	20	0	80	0.72
10033760--10033811	2	26.0	2	100	0	104	50	0	0	50	1.00
10044433--10044473	11	3.5	11	87	12	55	85	0	0	14	0.60
10044433--10044476	12	3.6	12	87	6	61	84	0	0	15	0.63
10044569--10045136	293	1.9	292	86	3	802	39	10	15	34	1.83
10045910--10045980	30	2.4	31	92	7	128	30	22	22	23	1.99
10045927--10045982	15	3.7	15	74	9	60	30	23	21	25	1.99
10045943--10046036	45	2.1	45	85	0	125	28	26	21	23	1.99
10045973--10046048	15	5.1	15	83	0	98	30	28	18	22	1.97
10045910--10046027	30	3.9	30	83	5	114	29	26	20	23	1.99
10045973--10046048	30	2.5	30	86	0	116	30	28	18	22	1.97
10045958--10046043	45	1.9	45	90	0	136	30	29	18	22	1.97
10047838--10048101	45	5.9	45	84	0	312	30	21	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10047841--10048097	135	1.9	135	90	0	415	31	21	10	37	1.86
10047841--10048138	135	2.2	135	86	5	408	30	22	10	37	1.87
10047847--10048138	90	3.2	91	77	6	308	30	22	10	36	1.87
10048629--10048722	20	4.6	20	84	6	125	26	30	15	26	1.96
10053310--10053618	45	6.9	45	81	2	318	30	21	10	38	1.86
10053328--10053618	135	2.2	135	87	2	424	30	21	10	37	1.87
10054050--10054235	96	1.9	94	80	7	214	30	25	17	27	1.97
10056242--10056273	2	16.0	2	100	0	64	50	0	0	50	1.00
10058800--10059151	45	7.9	45	83	2	379	29	21	9	38	1.86
10058811--10059110	133	2.2	135	84	3	374	29	21	10	38	1.87
10058810--10059151	178	1.9	180	87	2	501	29	21	10	38	1.87
10059514--10059586	21	3.5	22	82	10	75	26	31	13	28	1.94
10059518--10059571	22	2.5	21	85	8	65	27	35	11	25	1.90
10059455--10059660	96	2.2	96	80	7	233	29	26	16	27	1.96
10067808--10068410	161	3.9	156	80	5	607	49	4	17	29	1.66
10079032--10079078	20	2.2	21	81	11	60	29	2	48	19	1.60
10079037--10079077	20	2.0	20	90	0	64	26	0	51	21	1.48
10079428--10079465	19	2.0	19	85	10	51	55	0	36	7	1.29
10079470--10079589	16	7.4	16	73	7	80	40	0	51	7	1.30
10079470--10079589	2	59.0	2	72	4	62	40	0	51	7	1.30
10081249--10081273	12	2.1	12	100	0	50	40	8	36	16	1.77
10090403--10090482	36	2.2	36	90	0	124	33	20	22	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10092116--10092168	20	2.7	20	76	5	54	47	0	37	15	1.45
10092335--10092380	24	1.9	24	82	8	58	36	2	45	15	1.58
10092952--10093016	30	2.2	29	86	5	87	40	0	47	12	1.41
10092952--10093038	30	3.0	29	80	8	79	35	0	50	13	1.42
10093740--10093783	22	1.9	22	86	9	61	56	0	29	13	1.38
10093932--10093982	22	2.4	21	84	12	61	43	1	47	7	1.43
10093963--10094045	33	2.6	32	88	11	125	51	0	38	9	1.35
10114464--10114530	29	2.3	29	76	16	68	62	0	14	22	1.32
10115877--10115913	18	2.0	20	89	10	60	5	5	43	45	1.49
10115950--10115994	3	14.7	3	82	13	56	62	0	2	35	1.08
10115950--10115994	20	2.2	20	88	7	65	62	0	2	35	1.08
10116258--10116452	42	4.8	42	82	5	222	31	15	24	28	1.96
10116469--10116732	117	2.3	117	77	2	280	28	25	12	34	1.92
10116781--10116988	116	1.8	115	82	1	272	24	22	16	37	1.94
10117097--10117328	116	2.0	117	88	2	351	25	23	15	34	1.94
10116742--10117511	319	2.4	318	81	4	865	27	20	17	34	1.95
10117213--10118142	203	4.6	201	85	3	1159	28	20	17	34	1.95
10117213--10118139	406	2.3	407	86	2	1288	28	20	17	34	1.95
10119974--10120051	33	2.3	34	80	10	88	41	11	7	39	1.70
10122190--10122293	8	11.6	8	72	16	55	2	19	2	75	1.06
10122182--10122220	19	2.0	20	85	5	53	0	20	0	79	0.73
10122199--10122261	27	2.5	24	82	10	74	1	20	4	73	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10130522--10130603	41	2.0	41	85	4	112	45	7	1	46	1.39
10130509--10130603	41	2.4	39	78	13	104	46	8	1	44	1.40
10130578--10130640	19	3.4	19	75	14	53	44	9	0	46	1.36
10130522--10130615	41	2.5	39	78	13	106	45	7	1	45	1.38
10130558--10130639	18	4.5	19	67	22	59	45	9	0	45	1.36
10132718--10132832	30	3.8	30	84	0	140	64	9	12	13	1.50
10132686--10132828	60	2.4	60	84	1	178	62	11	12	12	1.54
10132718--10132856	30	4.6	30	78	5	120	61	10	13	15	1.57
10133388--10133413	2	13.0	2	100	0	52	50	0	50	0	1.00
10134398--10134449	3	16.3	3	84	11	68	63	1	1	32	1.16

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   66   67   68   69   70   71   72   73