genome.fa.s1129.2.7.7.80.10.50.1000.5.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  5  of  89  ( 10573 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)
863506--863601	4	22.8	4	73	12	59	27	4	4	64	1.30
863532--863582	19	2.7	19	90	0	75	31	5	3	58	1.40
865723--865824	30	3.4	30	90	1	152	32	26	19	21	1.97
865726--865849	60	2.1	60	83	6	153	33	25	20	20	1.97
865810--865874	31	2.1	31	85	5	87	36	21	18	23	1.95
866602--866775	63	2.7	64	84	7	228	25	20	20	33	1.97
868186--868212	3	9.0	3	100	0	54	0	0	66	33	0.92
868313--868369	25	2.3	25	84	6	71	22	1	12	63	1.38
869124--869158	18	1.9	18	88	0	52	31	34	11	22	1.90
873547--873585	20	2.0	20	89	0	60	33	10	23	33	1.88
876085--876133	13	3.6	13	78	8	53	57	12	2	28	1.46
876129--876209	25	3.5	25	67	26	79	70	6	3	19	1.24
876133--876252	44	2.8	44	94	1	206	68	7	3	20	1.29
881055--881097	21	2.0	21	100	0	86	46	4	4	44	1.45
881167--881200	17	2.1	17	94	5	61	52	0	0	47	1.00
884968--885068	41	2.5	41	85	3	123	40	23	16	18	1.91
884971--885110	41	3.4	41	78	11	117	35	22	17	24	1.95
885012--885130	41	2.9	40	79	6	123	31	20	18	30	1.96
886770--886809	19	2.1	19	86	9	55	60	0	0	40	0.97
887517--887546	3	10.0	3	100	0	60	33	0	0	66	0.92
894442--894474	15	2.1	16	88	5	50	57	0	0	42	0.98
900560--900648	45	2.0	45	84	4	117	24	22	24	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
903510--903588	38	2.1	38	90	0	122	32	21	10	35	1.87
904053--904090	15	2.6	15	91	4	60	52	0	0	47	1.00
910317--910361	23	2.0	23	83	12	58	46	8	4	40	1.55
922937--923183	31	8.0	31	91	0	368	21	17	20	40	1.91
924471--924518	17	2.7	18	80	3	62	72	0	4	22	1.01
924538--924579	14	2.8	15	78	7	50	69	2	14	14	1.30
924232--925361	602	1.8	610	91	4	1886	54	8	10	26	1.63
925336--925422	38	2.2	40	95	4	160	57	2	8	32	1.40
926679--926729	14	3.3	15	81	18	52	72	0	0	27	0.85
926694--926729	3	12.7	3	88	11	58	69	0	0	30	0.89
926787--927189	38	10.8	37	86	8	489	43	8	3	44	1.52
926787--927189	75	5.4	73	84	8	492	43	8	3	44	1.52
927958--928588	86	7.4	85	86	4	815	25	17	21	35	1.95
927958--928605	170	3.8	170	86	4	858	25	18	21	34	1.96
930404--930428	13	1.9	13	100	0	50	72	4	8	16	1.24
930817--931102	150	1.9	150	83	2	369	19	26	18	36	1.95
935293--935331	2	19.5	2	86	0	51	48	2	0	48	1.15
935318--935367	24	2.0	26	88	11	77	50	6	2	42	1.38
935334--935450	36	3.3	36	82	7	141	44	7	4	43	1.52
935335--935729	38	10.2	37	76	14	311	44	7	3	44	1.49
935395--935493	48	2.1	48	90	7	157	41	6	5	47	1.50
935574--935717	35	3.8	39	76	17	126	47	10	1	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936199--936228	15	1.9	16	93	6	53	0	40	0	60	0.97
939380--939434	25	2.2	26	75	18	62	52	12	1	32	1.50
942543--942606	31	2.1	31	88	5	94	25	28	15	31	1.96
944551--944610	31	1.9	31	89	0	93	36	16	21	25	1.94
946154--946233	36	2.2	36	89	6	119	21	22	22	33	1.97
946603--946648	13	3.7	13	80	11	60	26	23	17	32	1.97
946620--946783	85	1.9	85	88	0	247	28	23	19	28	1.98
948611--948702	36	2.6	36	91	0	148	43	7	21	27	1.79
953306--953344	19	2.0	20	90	5	62	20	25	33	20	1.97
953592--953617	4	6.5	4	100	0	52	23	0	0	76	0.78
958798--958849	20	2.6	20	93	0	86	19	30	26	23	1.98
961508--961552	20	2.2	20	92	0	72	44	28	6	20	1.76
962903--962935	3	11.0	3	100	0	66	66	0	0	33	0.92
963779--963877	3	33.0	3	87	0	144	38	1	0	60	1.04
963883--963907	2	12.5	2	100	0	50	52	0	0	48	1.00
964000--964040	16	2.6	16	88	11	66	7	58	17	17	1.60
964260--964284	13	1.9	13	100	0	50	64	8	28	0	1.22
964271--964307	19	1.9	19	89	10	58	59	10	24	5	1.52
965246--965295	21	2.4	22	83	6	68	46	0	0	54	1.00
965451--965497	16	2.9	16	78	12	60	53	0	2	44	1.12
967175--967247	31	2.4	30	84	6	103	36	10	12	39	1.78
967175--967271	29	3.3	30	83	8	110	37	12	14	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
970233--970322	25	3.6	25	86	0	117	27	22	24	25	2.00
971287--971366	30	2.6	31	76	9	94	33	13	2	50	1.56
976828--976885	25	2.3	25	84	0	71	24	22	27	25	2.00
976838--976892	25	2.2	25	86	0	74	23	23	27	25	2.00
977857--977936	31	2.6	31	78	9	94	33	17	2	46	1.62
985572--985693	63	1.9	63	82	9	151	36	22	17	23	1.94
986337--986395	23	2.6	23	97	0	109	18	27	27	27	1.98
993272--993331	23	2.6	23	89	0	84	21	28	25	25	1.99
993270--993339	23	3.0	23	82	0	77	24	25	21	28	1.99
997236--997290	17	3.4	17	85	14	80	67	1	0	30	1.01
997236--997290	18	2.9	19	79	15	69	67	1	0	30	1.01
997313--997592	39	7.1	39	79	13	322	43	6	4	45	1.51
997484--997517	2	17.5	2	93	6	61	47	0	0	52	1.00
997505--997555	26	1.9	27	92	4	86	41	5	5	47	1.52
997432--997604	85	2.0	86	85	6	233	43	6	4	46	1.48
997558--997610	26	2.0	26	89	7	81	45	5	0	49	1.26
997521--997598	37	2.1	37	92	2	129	42	7	2	47	1.46
998613--998642	12	2.4	13	94	5	53	6	40	0	53	1.27
999431--999798	182	2.0	183	91	4	602	41	3	8	45	1.52
1002120--1002166	21	2.3	21	88	3	69	17	12	25	44	1.84
1003842--1003895	18	3.0	18	97	0	99	29	33	20	16	1.95
1010215--1010330	24	4.8	24	86	7	155	25	14	18	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010197--1010330	48	2.8	48	74	10	130	24	14	18	42	1.87
1012411--1012453	13	3.5	13	87	12	65	16	48	23	11	1.78
1014882--1014997	24	4.8	24	86	7	155	26	13	18	40	1.89
1014934--1015002	12	5.8	12	69	19	54	23	14	20	42	1.89
1015028--1015085	30	1.9	30	96	0	107	13	12	32	41	1.82
1015116--1015159	13	3.4	13	90	0	70	18	47	18	15	1.83
1015094--1015139	18	2.6	18	89	0	74	19	52	17	10	1.74
1015134--1015186	21	2.6	19	77	17	54	18	37	22	20	1.94
1017370--1017485	24	4.8	24	87	7	164	25	15	18	40	1.90
1017352--1017485	48	2.8	48	76	10	139	24	14	18	41	1.89
1017422--1017490	12	5.8	12	69	19	54	23	14	20	42	1.89
1019548--1019582	18	1.9	18	100	0	70	17	51	20	11	1.75
1021852--1021967	24	4.8	24	87	7	164	25	15	18	40	1.90
1021834--1021967	48	2.8	48	76	10	139	24	14	18	41	1.89
1021904--1021972	12	5.8	12	69	19	54	23	14	20	42	1.89
1024935--1025042	18	6.0	18	97	0	198	29	33	20	16	1.95
1032283--1032322	21	1.9	21	84	0	53	30	17	15	37	1.90
1033431--1033517	38	2.3	37	78	7	104	52	0	0	47	1.00
1034043--1034336	4	73.0	4	96	1	498	47	24	2	25	1.65
1039361--1039406	17	2.6	17	83	12	58	43	43	13	0	1.43
1041589--1041629	20	2.0	20	85	0	55	7	2	9	80	0.99
1053826--1053873	18	2.7	18	96	0	87	6	25	33	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055439--1055498	23	2.7	23	82	5	79	18	25	30	26	1.98
1059314--1059353	21	1.9	21	85	10	55	35	10	2	52	1.48
1061037--1061080	17	2.5	17	85	3	52	9	13	15	61	1.56
1070543--1070588	7	6.3	7	81	18	58	84	0	15	0	0.62
1070539--1070593	12	4.7	11	86	8	74	83	0	16	0	0.64
1070539--1070593	18	3.1	18	80	19	71	83	0	16	0	0.64
1070539--1070593	23	2.3	24	84	9	78	83	0	16	0	0.64
1070593--1070618	5	5.2	5	100	0	52	42	0	38	19	1.51
1071627--1072162	136	3.9	136	87	1	714	35	17	19	27	1.94
1071620--1072205	273	2.1	271	83	1	695	36	17	19	27	1.94

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89