genome.fa.s1465.2.7.7.80.10.50.1000.38.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  38  of  55  ( 6520 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)
7643274--7643446	41	4.2	41	85	5	224	38	24	20	17	1.93
7650636--7650693	28	2.1	28	86	0	80	32	18	15	32	1.93
7651754--7651851	49	2.0	49	100	0	196	24	18	14	42	1.87
7655715--7655786	36	2.0	36	91	0	117	22	20	25	31	1.98
7657555--7657582	14	2.0	14	100	0	56	50	14	21	14	1.78
7659812--7659912	51	2.0	51	96	0	184	34	11	21	31	1.90
7661673--7661700	14	2.0	14	100	0	56	50	14	21	14	1.78
7675259--7675285	2	13.5	2	100	0	54	48	0	0	51	1.00
7681911--7681942	2	16.0	2	100	0	64	50	0	0	50	1.00
7682126--7682173	23	2.1	23	88	0	69	35	12	18	33	1.89
7682555--7682606	23	2.3	22	90	6	77	44	19	1	34	1.62
7682565--7682627	23	2.7	23	90	0	90	38	17	6	38	1.75
7682285--7683157	431	2.0	431	97	0	1665	38	12	8	39	1.74
7682986--7683037	23	2.3	22	90	6	77	44	19	1	34	1.62
7682996--7683058	23	2.7	23	90	0	90	38	17	7	36	1.79
7686187--7686229	22	1.9	23	90	4	70	44	13	11	30	1.80
7686225--7686919	183	3.8	183	96	0	1241	33	16	14	36	1.89
7688119--7688190	3	24.0	3	78	0	72	25	34	5	34	1.79
7689623--7691038	198	7.1	198	99	0	2769	30	15	16	36	1.91
7691051--7691116	33	2.0	33	90	0	105	22	48	0	28	1.51
7691150--7691214	21	3.1	21	80	6	69	15	29	15	40	1.88
7693448--7693495	20	2.4	19	83	10	69	20	16	10	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7693617--7693662	20	2.3	20	89	10	76	17	17	10	54	1.70
7698274--7698306	16	2.0	17	94	5	59	36	6	21	36	1.78
7705329--7705380	14	3.9	14	72	7	54	71	1	0	26	0.97
7705333--7705370	19	2.0	20	89	5	60	73	2	0	23	0.95
7705339--7705381	19	2.3	19	83	0	50	72	2	0	25	0.97
7708198--7708245	21	2.3	21	88	0	69	43	16	6	33	1.73
7708221--7708257	16	2.2	17	90	4	58	40	13	13	32	1.84
7710731--7710766	18	1.9	19	88	5	56	52	5	5	36	1.48
7711714--7711745	2	16.0	2	100	0	64	50	0	0	50	1.00
7715121--7715163	5	8.6	5	100	0	86	39	0	0	60	0.97
7717854--7717888	2	17.5	2	93	0	61	48	0	0	51	1.00
7719400--7719457	3	19.3	3	89	7	82	62	0	0	37	0.96
7719398--7719457	25	2.5	24	89	5	86	61	0	0	38	0.96
7719506--7719556	27	2.0	24	85	11	66	70	1	1	25	1.08
7723930--7723958	3	9.7	3	100	0	58	68	0	0	31	0.89
7724192--7724236	23	2.0	23	86	0	63	26	20	26	26	1.99
7731079--7731129	23	2.2	23	85	0	66	31	31	23	13	1.93
7733290--7733328	14	2.9	14	88	3	53	28	35	2	33	1.71
7736640--7736706	18	3.6	18	74	7	71	34	29	17	17	1.94
7737240--7737288	20	2.5	20	89	0	80	28	22	20	28	1.98
7743538--7743599	18	3.3	18	71	8	61	32	27	19	20	1.97
7744173--7744311	63	2.2	64	80	6	149	24	17	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7747919--7747989	18	3.9	18	92	0	115	28	30	21	19	1.97
7751347--7751392	2	23.0	2	100	0	92	50	0	0	50	1.00
7762776--7762822	22	2.1	22	96	0	85	29	21	36	12	1.91
7762852--7762895	23	1.9	23	100	0	88	9	25	40	25	1.84
7762853--7762902	23	2.2	23	92	0	82	12	24	40	24	1.88
7763357--7763715	172	2.1	173	90	1	569	39	5	18	37	1.72
7765455--7765479	6	4.2	6	100	0	50	16	0	64	20	1.30
7765940--7766453	14	36.5	14	69	21	114	50	5	3	39	1.44
7765931--7766462	37	13.3	40	79	13	385	50	5	3	40	1.43
7765991--7766406	76	5.7	73	76	14	357	50	6	3	40	1.45
7766133--7766427	133	2.2	133	90	6	472	50	6	3	40	1.43
7765977--7766427	8	60.8	8	69	21	243	50	5	3	40	1.44
7769804--7769850	18	2.6	18	100	0	94	23	36	14	25	1.93
7771192--7771269	23	3.3	23	81	1	75	34	3	3	57	1.35
7771380--7771419	21	1.9	21	94	0	71	57	0	0	42	0.98
7771416--7771451	17	2.1	18	94	5	65	52	0	0	47	1.00
7773375--7773426	22	2.4	22	96	0	95	25	5	28	40	1.78
7775728--7775785	29	2.0	29	82	3	71	60	0	0	39	0.97
7775952--7775991	15	2.7	15	88	3	55	42	27	0	30	1.56
7780357--7780622	42	6.3	42	94	0	460	21	19	22	35	1.96
7780708--7780739	6	5.5	6	92	7	57	34	50	15	0	1.45
7781322--7781463	62	2.3	64	86	8	195	33	22	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7781350--7781499	21	7.2	21	83	10	182	30	25	20	24	1.99
7781516--7781569	21	2.6	21	93	0	90	20	22	27	29	1.98
7790140--7790189	21	2.4	21	93	0	91	22	28	16	34	1.95
7790182--7790416	20	11.6	20	73	10	138	36	18	20	25	1.95
7790161--7790419	41	6.3	40	70	11	141	34	18	19	27	1.95
7790161--7790396	61	3.9	61	71	10	167	35	18	19	26	1.95
7790948--7791044	34	2.9	34	90	1	151	42	21	23	12	1.87
7790942--7791060	19	6.7	19	69	20	87	44	21	21	11	1.84
7791056--7791178	20	6.9	19	73	20	113	11	24	18	45	1.82
7791078--7791134	14	3.7	14	72	20	51	10	24	21	43	1.83
7791059--7791154	33	2.9	33	95	1	174	11	23	19	44	1.83
7794842--7794877	14	2.6	14	95	0	63	33	0	22	44	1.53
7795016--7795059	19	2.3	19	100	0	88	45	27	15	11	1.81
7795056--7795171	19	6.6	19	68	18	81	14	22	16	46	1.83
7795061--7795171	52	2.1	52	88	0	159	15	21	15	47	1.82
7797929--7798010	20	4.1	20	95	0	137	23	29	19	28	1.98
7798355--7798410	20	2.8	20	94	0	94	41	23	21	14	1.89
7798439--7798532	19	5.0	19	92	2	154	15	20	15	47	1.82
7798432--7798460	13	2.3	13	94	5	51	17	20	13	48	1.81
7798439--7798530	37	2.5	37	92	1	148	16	19	16	47	1.82
7800100--7800179	42	1.9	42	92	0	133	21	15	41	22	1.90
7800521--7800572	20	2.6	19	87	6	68	36	28	13	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7800526--7800638	40	2.8	40	86	2	120	34	25	23	15	1.95
7800546--7800638	20	4.7	20	94	0	141	33	24	26	15	1.95
7800625--7800683	19	3.4	19	65	29	58	45	18	20	15	1.85
7800625--7800704	33	2.4	33	95	0	142	45	21	21	12	1.84
7800711--7800807	19	5.6	19	68	30	83	13	20	21	44	1.86
7800716--7800808	33	2.8	33	96	0	168	13	19	21	45	1.85
7800792--7800865	20	3.8	19	84	7	94	16	22	24	36	1.94
7801404--7801469	18	3.7	18	91	0	96	15	12	42	30	1.83
7803309--7803383	21	3.6	21	71	10	73	21	17	22	38	1.93
7803309--7803403	20	4.7	20	70	11	68	23	17	22	36	1.95
7803309--7803406	41	2.4	41	92	0	160	22	17	21	38	1.93
7803336--7803424	41	2.2	41	83	4	108	23	19	21	35	1.95
7803431--7803479	21	2.3	21	89	6	73	42	18	24	14	1.87
7803440--7803514	21	3.6	20	75	13	71	37	16	25	21	1.93
7811406--7811449	22	2.0	22	82	8	54	43	6	22	27	1.78
7811876--7811967	30	3.0	30	78	12	107	28	17	17	36	1.92
7820199--7820546	167	2.0	173	87	7	503	47	9	2	40	1.50
7822280--7822341	3	20.7	3	81	6	72	37	3	0	59	1.13
7822271--7822318	22	2.1	23	92	3	80	39	2	0	58	1.10
7824315--7824358	21	2.1	21	100	0	88	31	13	36	18	1.90
7828112--7829443	106	12.6	106	93	0	2168	33	25	18	22	1.96
7829497--7829673	84	2.1	85	88	1	257	28	23	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7829901--7829962	3	21.3	3	75	18	60	35	3	0	61	1.12
7829901--7829962	18	3.7	17	83	12	83	35	3	0	61	1.12
7834990--7835097	38	2.8	38	77	8	119	36	17	2	43	1.64
7835338--7835416	26	3.1	26	77	18	87	41	3	0	54	1.18
7835390--7835434	21	2.1	21	83	0	54	44	2	0	53	1.13
7835337--7835459	26	5.0	25	74	19	84	43	2	0	53	1.13
7835322--7835459	50	2.9	47	78	11	129	44	2	0	53	1.12
7835399--7835450	21	2.4	21	87	6	77	42	0	0	57	0.98
7838908--7838941	15	2.3	15	89	0	50	50	0	0	50	1.00
7838926--7838977	26	1.9	28	84	7	72	48	1	0	50	1.12

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