genome.fa.s1129.2.7.7.80.10.50.1000.47.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  47  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)
10451589--10451676	32	2.6	33	79	17	99	46	2	0	51	1.13
10451616--10451667	16	3.2	16	72	0	59	53	1	0	44	1.11
10451619--10451678	32	1.9	30	93	6	102	48	1	0	50	1.11
10453457--10453515	24	2.5	24	100	0	118	28	16	16	37	1.92
10455300--10455515	43	5.0	43	78	3	150	34	18	21	25	1.96
10455324--10455515	43	4.5	43	79	4	210	32	19	21	26	1.97
10455349--10455508	85	1.9	86	85	3	225	33	18	21	26	1.97
10455574--10455741	43	3.9	43	80	6	180	35	17	17	28	1.93
10455861--10455907	21	2.2	21	88	0	67	51	14	6	27	1.67
10458558--10458858	41	7.3	40	73	10	162	34	16	17	31	1.92
10458690--10458870	84	2.2	82	80	8	197	35	15	17	31	1.91
10458572--10458858	125	2.3	122	79	7	285	35	16	16	31	1.92
10460689--10460746	27	2.1	27	81	15	66	55	15	6	22	1.64
10461526--10461561	18	2.0	18	94	0	63	36	33	13	16	1.89
10461545--10461732	22	8.5	22	88	0	277	30	28	25	15	1.96
10471132--10471284	36	4.2	36	82	0	162	36	22	20	20	1.95
10473734--10473777	19	2.3	18	81	14	52	72	9	2	15	1.19
10476111--10476147	17	2.1	18	90	5	58	43	5	2	48	1.40
10477372--10477420	22	2.2	23	85	10	66	63	4	2	30	1.24
10477480--10477509	14	2.1	14	100	0	60	43	23	20	13	1.86
10483884--10483926	15	2.9	14	89	6	59	67	2	0	30	1.03
10492325--10492375	21	2.4	21	100	0	102	49	0	23	27	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10497236--10497275	21	2.0	20	90	5	62	40	20	15	25	1.90
10508230--10508267	19	2.0	19	100	0	76	10	15	26	47	1.78
10508234--10508276	19	2.3	19	83	0	50	16	11	30	41	1.83
10508472--10508534	3	21.0	3	83	6	83	60	0	1	38	1.07
10511084--10511118	13	2.8	13	91	4	54	25	0	28	45	1.54
10513024--10513082	4	14.8	4	100	0	118	50	23	25	0	1.49
10526563--10526622	23	2.6	22	81	5	57	43	8	18	30	1.79
10526550--10526761	87	2.4	87	91	0	343	42	11	14	31	1.80
10526659--10526706	23	2.1	23	88	0	69	39	6	18	35	1.76
10526763--10527330	199	2.9	200	88	3	792	32	17	13	37	1.88
10528747--10528818	28	2.4	30	78	15	78	44	1	2	51	1.24
10528747--10528817	29	2.4	31	77	17	78	43	1	2	52	1.24
10528744--10528829	14	6.2	14	69	11	52	45	1	2	51	1.21
10528763--10528825	28	2.2	29	77	8	67	49	1	3	46	1.27
10528844--10528912	24	2.9	25	75	18	67	42	1	2	53	1.24
10529435--10529487	25	2.0	27	82	7	65	45	7	1	45	1.42
10529480--10529570	30	3.1	30	80	10	82	50	1	1	47	1.15
10529488--10529574	14	6.2	14	69	9	52	47	1	1	50	1.16
10529502--10529570	28	2.5	28	74	6	70	49	1	1	47	1.19
10529606--10529657	24	2.3	23	86	6	79	38	0	3	57	1.17
10527366--10531243	779	5.0	773	90	4	6080	38	8	7	44	1.64
10530205--10530265	29	2.0	33	81	15	78	44	6	1	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10530277--10530342	28	2.2	32	79	15	79	45	1	1	51	1.19
10530281--10530353	14	5.3	14	69	8	51	47	1	1	49	1.18
10530281--10530349	28	2.5	28	74	6	70	49	1	1	47	1.19
10530385--10530436	24	2.2	24	77	16	56	40	0	5	53	1.25
10530445--10530533	24	3.1	30	69	21	75	32	3	4	59	1.34
10530721--10530765	21	2.1	21	88	8	65	37	15	0	46	1.46
10530926--10530955	14	2.1	14	93	0	51	43	10	0	46	1.37
10531051--10531135	30	2.8	31	80	15	83	48	1	1	49	1.16
10531062--10531147	14	6.2	14	69	11	52	47	1	1	50	1.16
10531484--10531533	23	2.2	23	92	0	82	32	18	12	38	1.87
10531507--10531652	64	2.3	64	92	0	247	31	13	11	43	1.79
10531625--10531819	23	8.7	23	72	13	120	33	16	8	41	1.79
10531561--10531808	110	2.3	110	91	1	399	33	15	9	41	1.79
10534289--10534460	85	2.0	85	95	0	308	48	12	7	30	1.69
10540050--10540623	81	7.1	81	88	0	770	29	22	11	35	1.90
10541285--10541337	20	2.7	20	80	11	63	24	32	15	28	1.95
10556664--10556700	14	2.6	14	95	0	65	8	37	0	54	1.30
10557261--10557300	21	2.0	20	85	9	55	27	17	30	25	1.97
10558500--10558579	32	2.5	32	81	0	88	36	16	18	28	1.93
10560289--10560466	90	2.0	90	92	2	295	43	6	12	37	1.69
10563828--10563863	18	2.0	18	100	0	72	94	5	0	0	0.31
10563828--10563863	1	36.0	1	88	0	54	94	5	0	0	0.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10563827--10563887	13	4.7	13	78	11	54	85	6	6	1	0.81
10563829--10563875	9	4.9	10	79	10	62	89	6	4	0	0.59
10574407--10574440	18	2.0	17	88	11	52	58	5	0	35	1.22
10576148--10576353	43	4.7	43	70	18	120	24	17	33	24	1.97
10575905--10576366	134	3.4	134	89	0	708	24	17	32	25	1.97
10576442--10576620	66	2.7	65	85	5	234	40	14	19	25	1.90
10576420--10576620	66	3.1	65	82	7	228	39	15	19	24	1.91
10576589--10576652	22	3.2	22	67	28	70	42	14	14	29	1.84
10576570--10576667	37	2.6	37	87	3	144	43	15	13	27	1.83
10576611--10576740	64	2.0	65	82	7	156	43	13	13	29	1.83
10576515--10576718	103	2.0	100	81	9	234	42	14	14	27	1.85
10576879--10577117	37	6.5	37	85	5	317	33	11	14	41	1.82
10576879--10577119	73	3.3	73	87	4	335	32	12	14	41	1.82
10577059--10577125	33	2.2	31	81	10	75	37	16	11	34	1.85
10577366--10577433	34	2.0	34	85	2	93	32	13	17	36	1.89
10577522--10577593	32	2.2	32	87	0	99	30	22	18	29	1.97
10578622--10578670	15	3.4	14	77	8	53	2	16	6	75	1.09
10579339--10579404	28	2.4	28	94	0	114	30	3	25	40	1.71
10589814--10589878	3	21.7	3	84	6	87	61	0	3	35	1.12
10589904--10589945	2	21.5	2	81	13	52	50	4	0	45	1.23
10589986--10590126	2	72.5	2	69	20	77	52	6	0	40	1.32
10589988--10590117	17	7.5	17	72	19	74	51	6	0	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10605815--10605866	21	2.5	21	87	3	70	26	21	17	34	1.95
10608733--10608790	29	2.0	29	86	0	80	13	34	27	24	1.93
10608834--10608913	14	5.3	14	73	16	70	23	35	30	11	1.90
10608896--10608946	23	2.2	23	89	0	75	25	27	37	9	1.87
10608973--10609028	29	1.9	29	96	0	103	19	30	37	12	1.89
10617357--10617406	20	2.4	21	83	9	59	66	4	8	22	1.35
10624055--10624175	10	14.1	8	77	14	54	47	3	1	47	1.28
10624084--10624221	2	71.5	2	81	14	166	50	2	1	46	1.22
10624090--10624221	42	3.1	42	89	4	185	50	1	1	46	1.20
10626373--10626413	18	2.3	18	95	0	73	39	14	26	19	1.90
10626410--10626465	22	2.5	22	97	0	103	33	14	23	28	1.94
10626899--10627121	45	5.5	44	69	22	180	35	9	23	30	1.88
10626889--10627278	79	4.9	79	87	0	521	37	9	23	29	1.86
10627028--10627168	34	3.8	35	68	19	106	39	9	22	29	1.85
10627219--10627323	45	2.3	45	95	0	183	35	11	26	26	1.90
10627136--10627378	124	2.0	124	84	0	324	36	10	24	28	1.88
10627924--10627990	2	34.5	2	94	5	120	50	0	0	49	1.00
10633169--10633277	14	8.1	14	72	20	65	76	5	17	0	1.03
10633175--10633294	15	7.8	15	72	17	68	76	4	17	1	1.02
10633169--10633294	26	4.7	26	76	14	105	76	4	17	1	1.04
10633157--10633290	53	2.6	52	77	18	145	74	5	18	1	1.08
10633175--10633293	49	2.4	47	75	20	109	77	4	16	1	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10635917--10636001	36	2.4	36	86	2	118	32	20	7	40	1.79
10636092--10636164	37	1.9	38	86	2	103	34	16	8	41	1.78
10636077--10636175	37	2.6	37	76	6	101	30	18	10	41	1.83
10636283--10636461	65	2.7	66	85	1	261	29	18	12	39	1.88
10636468--10636877	138	3.0	137	80	4	511	27	26	16	29	1.97
10636482--10636891	137	3.0	135	80	5	475	28	26	16	28	1.97
10637188--10637305	3	39.3	3	84	0	155	30	5	0	64	1.15
10637188--10637305	27	4.4	27	96	0	209	30	5	0	64	1.15
10641488--10641515	11	2.5	11	100	0	56	7	7	35	50	1.57
10641505--10641599	30	3.2	30	81	3	120	22	27	16	33	1.95

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