genome.fa.s8620.2.7.7.80.10.50.1000.53.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  53  of  64  ( 7674 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)
10748024--10748049	2	13.0	2	100	0	52	50	0	0	50	1.00
10756483--10756661	92	2.0	90	83	4	225	25	15	16	42	1.87
10759321--10759369	2	25.5	2	85	8	66	48	2	0	48	1.12
10757829--10759674	923	2.0	920	97	1	3489	43	10	12	33	1.76
10760909--10761067	64	2.5	65	85	6	200	31	24	17	26	1.97
10761039--10761087	19	2.6	19	84	9	57	24	28	20	26	1.99
10769513--10769672	65	2.5	63	85	6	205	30	23	19	27	1.98
10769644--10769692	19	2.6	19	84	9	57	24	28	20	26	1.99
10770825--10770902	34	2.2	35	84	8	97	42	11	0	46	1.40
10770864--10770923	22	2.6	22	84	12	77	45	10	0	45	1.37
10770938--10770977	17	2.5	17	80	15	50	47	2	2	47	1.29
10770979--10771024	16	3.1	15	81	9	58	76	10	0	13	1.03
10773267--10773309	18	2.4	19	80	11	54	44	11	6	37	1.68
10777388--10777426	16	2.3	17	86	8	53	38	0	7	53	1.30
10777786--10778040	37	7.1	37	82	11	325	45	1	7	45	1.40
10777898--10777960	28	2.3	28	94	5	112	44	0	7	47	1.32
10777871--10778001	65	2.0	65	92	0	217	46	0	7	45	1.37
10777898--10777979	28	2.9	28	80	7	78	46	1	7	45	1.39
10777824--10778052	102	2.3	100	88	5	329	45	0	7	46	1.37
10778042--10778088	22	2.1	22	88	0	67	34	0	6	59	1.23
10778145--10778182	13	3.0	13	80	3	51	36	28	15	18	1.92
10781240--10781290	19	2.7	19	87	3	68	47	0	1	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10783055--10783105	25	2.0	25	81	11	59	43	3	13	39	1.63
10783448--10783604	64	2.5	63	82	7	181	33	19	23	22	1.97
10783592--10783649	20	2.6	22	86	10	75	31	18	22	27	1.97
10784435--10784918	245	2.0	242	97	1	905	43	3	20	32	1.70
10785012--10785045	2	17.0	2	100	0	68	50	0	0	50	1.00
10785437--10785504	23	3.0	23	88	0	100	17	26	25	30	1.97
10785640--10785693	28	1.9	28	81	7	65	37	1	18	42	1.61
10787596--10787674	36	2.2	36	93	2	133	35	20	3	40	1.70
10796148--10796219	36	1.9	38	88	5	112	27	16	12	43	1.84
10796036--10796585	102	5.4	100	82	6	617	32	18	10	39	1.83
10797330--10797417	27	3.2	27	77	16	92	67	0	18	14	1.24
10800212--10800280	36	1.9	36	82	5	86	13	8	2	75	1.15
10806081--10806115	17	2.0	18	88	5	54	17	45	22	14	1.84
10806131--10806216	29	3.0	29	92	0	136	25	9	20	44	1.81
10806210--10806277	29	2.3	29	82	0	82	27	5	19	47	1.72
10810069--10811207	569	2.0	569	96	0	2116	33	19	22	24	1.97
10813987--10814045	6	9.5	6	77	17	50	79	0	18	1	0.81
10813993--10814048	9	6.2	10	71	23	52	78	0	21	0	0.75
10813987--10814048	22	2.8	21	82	7	63	79	0	19	1	0.82
10813993--10814045	21	2.7	20	80	11	65	79	0	20	0	0.74
10813993--10814043	27	1.9	27	92	4	86	78	0	21	0	0.75
10815612--10815668	29	1.9	30	82	10	73	28	8	3	59	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10815757--10815790	2	17.0	2	87	0	50	55	0	0	44	0.99
10815952--10815988	17	2.2	18	90	9	60	29	2	0	67	1.04
10815963--10816180	120	1.8	118	81	3	267	35	7	8	48	1.63
10821779--10822089	73	4.2	73	86	3	401	27	22	18	30	1.98
10822157--10822591	112	3.6	116	79	11	382	39	14	19	25	1.90
10822270--10822591	125	2.6	123	85	6	427	40	14	19	25	1.90
10822510--10822865	139	2.6	138	85	4	448	40	14	17	27	1.88
10823095--10823174	39	2.0	40	90	2	126	20	42	20	17	1.89
10824289--10824345	29	1.9	30	82	10	73	28	8	3	59	1.44
10824434--10824467	2	17.0	2	93	0	59	52	0	0	47	1.00
10824640--10824868	120	1.9	118	81	7	275	37	6	8	46	1.62
10826997--10827065	27	2.6	27	88	4	95	55	17	17	10	1.69
10827989--10828062	26	2.6	29	75	16	73	10	9	6	72	1.26
10828052--10828104	21	2.6	21	78	3	54	13	9	1	75	1.12
10833861--10833938	21	3.5	22	78	5	95	26	23	24	25	2.00
10835921--10835970	27	1.9	24	84	15	64	24	4	12	60	1.49
10836106--10836136	2	15.5	2	100	0	62	51	0	0	48	1.00
10836632--10836756	64	1.9	65	88	4	191	28	23	20	27	1.99
10836728--10836776	19	2.6	19	84	9	57	24	28	20	26	1.99
10838319--10838379	29	2.1	29	81	6	70	19	13	8	59	1.59
10840552--10840579	11	2.5	11	100	0	56	78	0	0	21	0.75
10844311--10844335	13	1.9	13	100	0	50	32	0	48	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10846597--10846649	21	2.5	21	85	11	81	30	26	18	24	1.98
10846787--10846831	22	2.0	22	95	0	81	26	22	26	24	2.00
10847081--10847137	21	2.9	19	82	14	80	47	12	10	29	1.74
10847081--10847137	18	3.0	18	85	12	78	47	12	10	29	1.74
10847081--10847147	19	3.5	18	84	11	71	49	10	11	28	1.73
10847933--10847973	22	1.9	21	85	5	55	21	19	26	31	1.97
10848187--10848243	21	2.9	19	78	14	71	49	10	8	31	1.68
10848187--10848244	18	3.1	18	80	11	71	50	10	8	31	1.67
10855232--10855293	23	2.7	23	100	0	124	20	33	25	19	1.96
10855232--10855315	23	3.8	20	89	6	69	22	35	25	16	1.95
10860019--10860072	22	2.5	22	78	0	63	27	22	22	27	1.99
10863217--10863280	32	1.9	32	87	6	92	23	20	32	23	1.98
10863234--10863282	18	3.0	17	71	28	52	22	20	32	24	1.98
10863539--10863664	2	66.5	2	66	21	58	45	4	3	46	1.43
10865481--10865690	65	3.2	64	77	12	214	26	19	24	30	1.98
10873742--10873799	21	3.0	19	80	11	73	31	8	10	50	1.67
10874836--10874896	18	3.2	19	86	9	70	31	11	11	45	1.76
10874846--10874902	21	2.9	19	87	7	71	29	10	14	45	1.78
10875312--10875365	21	2.6	21	84	0	81	24	22	25	27	2.00
10877619--10877643	13	1.9	13	100	0	50	20	48	0	32	1.50
10881370--10881395	10	2.6	10	100	0	52	23	0	0	76	0.78
10885181--10885229	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10885202--10885339	64	2.2	64	83	7	165	28	21	21	28	1.98
10885820--10885915	2	48.0	2	100	0	192	50	0	0	50	1.00
10886054--10886103	25	1.9	24	84	15	64	60	12	4	24	1.49
10886497--10886540	21	2.1	21	82	0	52	36	15	36	11	1.84
10888092--10888169	21	3.5	22	78	5	95	25	24	23	26	2.00
10888102--10888189	42	2.0	43	83	12	110	27	21	22	28	1.99
10890783--10890822	21	1.9	21	85	10	55	35	10	2	52	1.48
10892767--10892802	18	2.1	18	89	5	56	25	19	22	33	1.97
10896129--10896177	23	2.2	22	82	7	64	24	14	6	55	1.62
10896671--10896715	23	2.0	23	86	0	63	2	24	4	68	1.19
10898464--10898562	2	51.5	2	71	18	68	52	0	4	43	1.20
10898430--10898536	53	2.1	50	84	8	135	53	0	6	39	1.33
10898521--10898648	32	4.0	31	71	15	109	53	0	5	39	1.29
10898596--10898657	25	2.4	25	86	7	81	58	0	4	37	1.20
10898521--10898669	24	6.2	24	70	23	93	55	0	4	38	1.26
10899333--10899489	83	1.9	83	82	10	196	21	32	2	43	1.66
10900972--10901037	33	2.0	33	100	0	132	21	6	24	48	1.72
10902626--10902669	23	2.0	23	86	4	63	34	11	2	52	1.50
10904940--10904983	13	3.3	13	78	6	52	50	0	6	43	1.29
10910430--10910472	2	21.5	2	100	0	86	51	0	0	48	1.00
10912995--10913093	44	2.2	44	85	5	135	28	4	10	57	1.50
10913606--10913651	16	2.9	16	81	15	51	30	2	2	65	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10916215--10916248	17	1.9	18	88	5	52	23	5	0	70	1.09
10916232--10916899	44	15.9	43	74	12	458	24	18	6	50	1.70
10916232--10916978	43	17.7	42	74	11	491	24	19	6	49	1.71
10916490--10916555	32	2.1	31	97	2	123	22	18	6	53	1.66
10919824--10919861	16	2.4	16	86	8	51	18	2	13	65	1.37
10923689--10923737	20	2.3	22	75	17	57	12	22	59	6	1.55
10923698--10923736	20	2.0	20	89	0	60	7	25	58	7	1.52
10925093--10925140	14	3.4	14	72	11	53	14	18	0	66	1.25
10925102--10925164	14	4.4	14	73	13	56	22	14	0	63	1.30
10931468--10931514	20	2.4	19	86	10	67	57	10	14	17	1.65

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