genome.fa.s1129.2.7.7.80.10.50.1000.44.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  44  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)
9700795--9700876	27	3.2	26	77	17	57	79	14	4	1	0.96
9700810--9700876	9	7.6	9	77	3	64	76	16	5	1	1.06
9700794--9700869	26	3.0	25	77	14	75	80	14	5	0	0.88
9700806--9700876	35	2.0	35	94	0	124	77	15	5	1	1.02
9703484--9703510	9	3.0	9	100	0	54	22	11	11	55	1.66
9725189--9725233	18	2.5	18	100	0	90	26	8	20	44	1.80
9727819--9727980	85	1.9	84	84	3	218	31	20	19	29	1.97
9727958--9728003	13	3.5	13	90	0	74	30	17	21	30	1.96
9727952--9728003	26	2.0	26	84	0	68	34	15	21	28	1.94
9730537--9730582	21	2.1	22	84	4	58	23	6	2	67	1.25
9731255--9731583	172	1.9	172	98	0	631	34	18	15	32	1.92
9738329--9738414	2	43.0	2	100	0	172	50	0	0	50	1.00
9740847--9740891	18	2.4	18	88	3	63	28	2	4	64	1.25
9741750--9742123	189	2.0	186	83	2	462	38	9	11	40	1.74
9743107--9743156	5	10.0	5	95	0	73	34	0	0	66	0.92
9754214--9754277	24	2.6	24	83	11	78	45	15	18	20	1.86
9777139--9777208	2	35.0	2	100	0	140	50	0	0	50	1.00
9779707--9779832	56	2.2	56	94	0	216	38	11	15	34	1.85
9779741--9779829	28	3.2	28	65	17	76	40	7	16	34	1.78
9784398--9784730	81	4.1	81	87	3	494	36	10	21	31	1.88
9784394--9784730	161	2.1	163	88	4	513	35	10	21	32	1.87
9787417--9787492	31	2.4	31	80	2	89	26	31	27	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9787370--9787492	63	2.0	63	82	6	151	25	29	28	17	1.97
9788980--9789014	18	1.9	18	88	0	52	28	17	0	54	1.43
9790304--9790367	8	8.2	8	74	19	64	21	25	37	15	1.93
9790296--9790333	15	2.5	15	95	0	67	28	26	31	13	1.93
9790323--9790385	13	4.5	13	78	18	72	17	22	44	15	1.86
9790334--9790368	18	1.9	18	94	0	61	17	22	42	17	1.88
9790308--9790403	31	3.2	30	82	7	106	18	19	43	17	1.88
9790362--9790407	18	2.6	18	92	0	74	13	13	52	21	1.73
9792494--9792569	31	2.4	31	80	2	89	26	31	27	14	1.95
9792447--9792569	63	2.0	63	82	6	151	25	29	28	17	1.97
9794056--9794090	18	1.9	18	88	0	52	28	17	0	54	1.43
9795371--9795408	7	5.1	7	87	12	58	26	26	34	13	1.93
9795371--9795442	8	9.4	8	76	18	73	22	25	37	15	1.93
9795371--9795408	15	2.5	15	100	0	76	26	26	34	13	1.93
9795398--9795460	13	4.5	13	78	18	72	17	22	44	15	1.86
9795409--9795443	18	1.9	18	94	0	61	17	22	42	17	1.88
9795383--9795478	31	3.2	30	84	7	115	18	20	43	16	1.88
9795437--9795482	18	2.6	18	96	0	83	13	15	52	19	1.75
9799986--9800211	80	2.8	80	90	1	344	34	9	22	32	1.87
9800143--9800277	66	2.0	66	95	0	243	34	10	24	31	1.89
9802535--9802585	16	3.0	17	78	18	61	33	0	0	66	0.92
9802733--9802767	16	2.2	16	100	0	70	20	11	5	62	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9803782--9803818	18	2.0	20	84	10	51	35	5	2	56	1.36
9803974--9804250	150	1.9	148	81	6	335	38	9	14	37	1.79
9808329--9808659	81	4.1	81	88	3	477	37	10	21	29	1.87
9812081--9812118	16	2.4	16	86	4	51	78	0	10	10	0.95
9813143--9813592	82	5.5	82	88	1	650	39	23	15	21	1.91
9813734--9813797	3	21.7	3	87	9	87	35	3	0	60	1.12
9815371--9815417	20	2.2	22	85	11	62	29	0	2	68	1.02
9817732--9817778	15	3.3	15	77	16	55	46	2	0	51	1.13
9821300--9821336	15	2.5	15	91	4	58	27	2	13	56	1.50
9821329--9821362	17	1.9	18	88	5	52	35	0	0	64	0.94
9824126--9824175	21	2.4	21	96	0	91	36	8	34	22	1.83
9826101--9826189	24	3.7	25	77	16	82	44	17	14	22	1.85
9826859--9826893	9	3.9	9	100	0	70	54	11	0	34	1.37
9831001--9831182	95	1.9	95	87	0	265	37	13	23	25	1.91
9831604--9832099	81	6.1	81	91	1	755	35	12	22	30	1.91
9837651--9837702	21	2.7	18	82	8	59	36	9	17	36	1.82
9837688--9837888	94	2.1	95	84	4	255	41	11	20	25	1.87
9838306--9838721	81	5.1	81	91	0	654	34	12	22	30	1.91
9839648--9839839	53	3.6	53	86	1	242	39	15	15	30	1.87
9847810--9847844	17	2.1	17	100	0	70	11	17	34	37	1.85
9852577--9852611	3	11.7	3	100	0	70	68	0	0	31	0.90
9853123--9853327	53	3.9	53	84	1	250	41	17	14	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9853123--9853316	106	1.8	106	87	0	289	42	16	13	27	1.86
9857892--9857930	17	2.2	18	86	4	53	33	7	0	58	1.26
9857892--9857925	16	2.1	17	88	5	52	29	8	0	61	1.26
9858219--9858485	140	1.9	140	89	3	412	37	13	13	35	1.84
9858891--9859160	146	1.8	146	86	3	391	28	20	20	31	1.97
9862125--9862153	14	2.1	14	100	0	58	20	6	20	51	1.70
9873022--9873060	15	2.7	15	88	7	55	25	0	0	74	0.82
9873283--9873469	5	38.8	5	69	19	80	52	4	1	41	1.30
9873308--9873471	2	86.5	2	68	22	79	51	4	1	42	1.31
9873283--9873471	9	20.2	9	69	19	95	52	4	1	41	1.29
9873315--9873399	40	2.2	39	82	6	100	51	8	0	40	1.32
9875414--9875450	19	1.9	19	89	10	58	75	0	24	0	0.80
9877810--9877877	30	2.3	30	92	0	109	58	4	26	10	1.49
9884244--9884283	19	2.1	19	95	0	71	22	17	32	27	1.96
9884377--9884446	21	3.2	21	65	21	54	41	8	20	30	1.82
9884376--9884544	45	3.8	45	86	2	232	40	7	20	31	1.80
9884376--9884544	91	1.9	89	86	2	239	40	7	20	31	1.80
9886315--9886360	18	2.5	18	82	10	58	73	2	4	19	1.10
9887776--9887927	67	2.2	69	82	10	179	34	13	22	29	1.93
9887876--9888153	36	8.1	36	69	17	191	39	11	19	29	1.86
9887809--9888153	99	3.4	100	79	8	342	38	11	20	30	1.87
9887976--9888059	34	2.4	32	75	14	87	38	9	22	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9888083--9888191	36	3.0	36	83	1	119	38	10	22	28	1.87
9888746--9888995	102	2.4	102	85	6	313	24	16	24	34	1.95
9888975--9889015	16	2.6	16	96	0	73	41	9	17	31	1.82
9888865--9889229	126	3.0	126	76	12	384	26	15	22	36	1.93
9888991--9889283	110	2.7	110	91	1	462	24	15	23	36	1.94
9890201--9890463	95	2.7	96	84	6	300	31	18	15	34	1.92
9898619--9898665	16	2.8	17	80	6	51	48	2	2	46	1.25
9906320--9906362	19	2.3	19	84	4	52	72	2	13	11	1.22
9906532--9906573	21	2.0	22	90	4	68	64	0	4	30	1.14
9908306--9908369	33	1.9	33	87	6	94	32	12	15	39	1.85
9908369--9908744	65	5.6	64	73	17	298	40	11	20	27	1.86
9908415--9908798	36	11.1	36	76	13	308	40	12	20	27	1.88
9908363--9908794	134	3.2	134	84	6	543	40	11	20	27	1.87
9908710--9908821	34	3.1	35	86	11	140	38	10	18	32	1.85
9910101--9910327	95	2.6	89	80	10	252	32	20	18	29	1.96
9910159--9910340	95	1.9	95	88	2	276	30	19	18	31	1.95
9914382--9914428	19	2.5	19	83	12	62	74	2	14	8	1.15
9914388--9914436	20	2.5	20	80	6	55	75	2	12	10	1.13
9914396--9914442	22	2.0	24	88	12	71	74	0	14	10	1.07
9914400--9914476	23	3.4	22	77	12	66	70	0	12	16	1.17
9914425--9914463	12	3.2	12	81	0	51	74	0	7	17	1.05
9914628--9914672	3	15.0	3	100	0	90	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9923667--9923725	29	2.0	29	100	0	118	49	13	13	23	1.78
9927224--9927332	46	2.4	46	96	3	202	22	14	20	43	1.88
9932295--9932351	24	2.4	24	84	0	69	43	17	12	26	1.84
9934932--9934994	16	3.8	16	78	12	63	22	3	1	73	1.07
9939588--9940023	46	9.5	46	87	0	548	44	13	18	23	1.84
9941941--9941975	2	17.5	2	100	0	70	51	0	0	48	1.00
9949028--9949060	16	2.0	17	94	5	59	30	18	24	27	1.98
9949296--9949364	26	2.7	26	80	8	77	63	1	1	33	1.12
9949311--9949350	9	4.6	9	84	6	55	65	0	2	32	1.06
9949683--9949720	19	2.0	19	100	0	76	42	10	21	26	1.85

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