genome.fa.s7984.2.7.7.80.10.50.1000.41.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  41  of  65  ( 7696 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)
8359489--8359517	13	2.3	13	94	5	51	17	0	0	82	0.66
8359593--8359636	19	2.3	19	84	0	52	70	0	0	29	0.88
8360088--8360160	26	2.8	25	80	12	85	31	0	5	63	1.17
8360088--8360160	24	2.8	26	76	15	80	31	0	5	63	1.17
8369828--8369860	14	2.4	14	90	5	50	66	0	12	21	1.23
8372635--8372686	26	2.0	25	85	10	70	38	0	1	59	1.08
8373702--8373731	15	2.0	15	93	0	51	26	10	20	43	1.83
8378987--8379045	23	2.5	23	83	2	73	30	11	6	50	1.65
8378987--8379036	24	2.1	24	88	3	75	26	14	6	54	1.63
8379238--8379359	64	1.9	65	82	1	147	46	10	4	37	1.60
8379600--8379631	16	2.0	16	93	0	55	43	53	0	3	1.16
8379929--8379995	29	2.3	31	80	17	88	25	7	4	62	1.40
8380651--8380716	27	2.5	27	82	2	80	57	22	3	16	1.53
8381850--8381907	24	2.5	23	86	5	80	68	15	5	10	1.35
8381905--8381931	10	2.7	10	100	0	54	62	7	11	18	1.50
8383495--8383549	2	27.5	2	100	0	110	50	0	0	49	1.00
8384747--8384777	14	2.2	14	94	0	53	61	6	0	32	1.21
8390908--8390936	2	14.5	2	100	0	58	48	0	0	51	1.00
8393049--8393117	3	23.0	3	85	5	95	39	0	0	60	0.97
8393049--8393117	18	3.8	18	90	5	113	39	0	0	60	0.97
8394684--8394729	14	3.4	14	76	8	51	50	0	0	50	1.00
8399731--8399756	5	5.2	5	100	0	52	23	57	19	0	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8399738--8399838	44	2.3	44	89	0	157	30	43	15	9	1.80
8401874--8401913	18	2.3	18	86	4	55	55	7	0	37	1.29
8402110--8402217	45	2.4	45	84	1	137	29	12	12	45	1.79
8406941--8407052	3	37.0	3	83	1	134	31	2	0	66	1.06
8406926--8407038	12	9.9	11	81	12	56	30	4	0	64	1.13
8408357--8408395	20	2.0	20	90	5	62	35	0	5	58	1.20
8408445--8408488	21	2.2	20	83	4	52	38	2	4	54	1.33
8408461--8408500	21	1.9	21	84	0	53	50	2	2	45	1.28
8419732--8419805	17	4.6	16	81	8	87	86	0	13	0	0.57
8419729--8419804	24	3.1	25	83	12	95	85	0	14	0	0.60
8419735--8419787	1	53.0	1	80	0	61	90	0	9	0	0.45
8419735--8419805	23	3.1	23	84	12	92	87	0	12	0	0.55
8419732--8419808	16	4.7	18	78	14	78	84	0	15	0	0.62
8420735--8420980	52	4.8	51	97	1	447	24	14	23	37	1.92
8420735--8420980	103	2.4	103	95	1	449	24	14	23	37	1.92
8421024--8421174	51	2.9	52	93	2	259	23	13	23	39	1.90
8420890--8421134	134	1.8	134	92	3	413	27	13	21	37	1.91
8421024--8421163	52	2.7	52	96	1	255	23	13	23	39	1.90
8420838--8421247	186	2.2	186	98	0	784	27	13	21	37	1.90
8421802--8422254	119	3.8	119	93	2	722	37	13	20	28	1.91
8422504--8422615	3	37.0	3	83	1	134	31	2	0	66	1.06
8422489--8422601	12	9.9	11	81	12	56	30	4	0	64	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8423932--8423970	20	2.0	20	90	5	62	35	0	5	58	1.20
8435278--8435329	23	2.2	25	83	13	74	51	0	3	44	1.19
8435468--8435512	20	2.5	18	80	19	58	24	24	11	40	1.87
8435481--8435518	20	1.9	20	100	0	76	23	28	10	36	1.88
8436709--8436794	42	2.0	43	93	2	147	40	19	5	33	1.76
8439619--8439650	13	2.5	13	94	0	55	25	21	25	28	1.99
8439629--8440096	85	5.5	85	94	1	769	30	20	16	31	1.95
8442386--8442412	2	13.5	2	100	0	54	51	0	0	48	1.00
8442469--8442767	85	3.5	84	89	1	429	32	18	20	29	1.96
8444338--8444590	136	1.9	136	93	0	434	41	19	9	29	1.83
8445277--8445351	21	3.6	20	76	7	69	25	0	26	48	1.52
8445317--8445400	21	4.0	20	73	13	62	17	1	33	47	1.56
8452654--8452715	30	2.1	30	100	0	124	35	30	12	20	1.91
8453861--8453937	39	2.0	39	84	5	102	35	32	19	12	1.90
8464679--8464727	21	2.3	21	96	0	89	20	26	28	24	1.99
8465865--8465899	9	3.9	9	92	0	61	45	20	8	25	1.79
8466014--8466052	17	2.4	17	91	4	62	43	0	7	48	1.31
8468641--8468705	29	2.4	27	85	12	80	27	12	4	55	1.56
8469793--8470094	43	7.1	43	82	3	335	34	18	22	24	1.96
8469793--8470097	85	3.6	85	83	6	350	34	19	22	24	1.97
8472921--8473001	40	2.0	40	97	0	153	20	9	13	55	1.66
8476063--8476092	11	2.7	11	89	0	51	23	20	10	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8479696--8479749	4	13.8	4	81	14	60	24	3	0	72	1.01
8479695--8479750	27	2.1	29	83	12	75	23	3	0	73	0.99
8483270--8483331	29	2.3	27	86	10	83	75	0	12	11	1.04
8484432--8484766	113	3.0	113	88	0	483	28	22	17	31	1.97
8484685--8484794	48	2.3	48	88	3	159	29	21	16	32	1.95
8484732--8484829	48	2.0	47	81	11	110	30	21	17	30	1.96
8490636--8490796	81	2.0	81	98	0	313	31	24	15	27	1.96
8491813--8491916	41	2.6	41	74	10	97	31	18	19	30	1.95
8491858--8492026	80	2.1	81	82	3	198	30	19	17	31	1.95
8496403--8496460	21	2.8	21	89	0	62	25	34	12	27	1.91
8496416--8496460	21	2.3	19	82	14	63	22	37	13	26	1.91
8501369--8501401	2	16.5	2	100	0	66	48	0	0	51	1.00
8501458--8501669	115	1.8	115	91	0	352	48	8	19	24	1.75
8505033--8505152	30	3.9	30	73	14	109	34	17	20	27	1.95
8505030--8505152	31	4.0	30	78	9	104	34	17	20	27	1.95
8505483--8505588	3	35.7	3	98	1	205	33	0	0	66	0.92
8505709--8505803	44	2.2	44	96	0	172	31	20	9	38	1.84
8510045--8510170	31	4.0	31	90	3	191	37	21	19	21	1.95
8510345--8510391	23	2.0	24	91	4	78	34	21	0	44	1.52
8510945--8510989	21	2.1	21	87	0	63	15	24	28	31	1.96
8511983--8512040	30	1.9	30	85	0	80	36	22	17	24	1.95
8512705--8512734	15	1.9	16	93	6	53	40	20	6	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8516551--8516580	14	2.1	14	93	0	51	26	10	16	46	1.78
8522159--8522192	11	3.1	11	95	0	59	67	8	14	8	1.41
8523200--8523227	12	2.3	12	100	0	56	32	7	7	53	1.55
8526368--8526554	31	6.0	31	94	1	313	39	21	18	20	1.93
8527400--8527455	21	2.7	21	100	0	112	35	21	19	23	1.96
8530463--8530525	31	2.0	31	90	6	101	39	22	19	19	1.92
8531182--8531338	64	2.5	64	78	10	160	27	19	20	33	1.96
8533585--8533653	20	3.5	20	89	0	102	26	14	10	49	1.75
8538174--8538206	16	2.1	16	100	0	66	18	9	30	42	1.81
8546343--8546413	23	2.9	26	78	17	64	61	15	11	11	1.55
8546376--8546436	23	2.7	23	94	0	104	62	16	8	13	1.53
8547756--8547806	21	2.4	21	86	0	66	11	35	37	15	1.84
8549217--8549255	18	2.2	18	95	0	69	61	0	20	17	1.34
8549321--8549361	10	4.3	10	87	12	68	21	0	7	70	1.11
8549324--8549361	18	2.1	19	95	5	69	21	0	7	71	1.11
8549331--8549371	18	2.3	18	87	4	57	19	2	7	70	1.22
8553482--8553549	33	2.1	33	100	0	136	42	20	16	20	1.89
8555442--8555502	29	2.1	29	84	6	79	39	8	14	37	1.76
8555451--8555507	29	1.9	29	92	3	96	36	7	15	40	1.75
8555911--8555948	5	8.0	5	82	11	53	21	55	21	2	1.56
8555920--8555944	13	1.9	13	100	0	50	24	48	24	4	1.68
8556139--8556179	19	2.2	19	100	0	82	14	9	9	65	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8556797--8556970	39	4.5	39	78	4	163	20	24	19	36	1.95
8556797--8556983	78	2.4	78	80	1	214	20	23	20	34	1.96
8561091--8561152	30	2.1	30	81	3	72	33	4	17	43	1.71
8562097--8562311	97	2.2	97	82	3	263	41	20	10	28	1.84
8566869--8566916	23	2.1	23	92	0	78	22	27	20	29	1.99
8573071--8573141	19	3.8	19	73	17	76	32	21	23	22	1.98
8573057--8573136	37	2.2	37	95	0	142	32	22	22	22	1.98
8573849--8573908	23	2.6	23	91	0	93	20	28	26	25	1.99
8573849--8573916	23	3.0	22	86	4	82	20	26	25	27	1.99
8574871--8574921	17	2.9	17	91	5	66	45	29	0	25	1.54

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