genome.fa.s9639.2.7.7.80.10.50.1000.46.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  46  of  62  ( 7398 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)
10223446--10223479	12	2.7	13	86	9	52	41	5	8	44	1.60
10238837--10239412	304	1.9	308	84	6	772	29	17	6	46	1.72
10239883--10239918	14	2.6	14	95	0	63	41	19	13	25	1.88
10248338--10248463	61	2.0	62	83	7	159	34	16	19	29	1.94
10254946--10255015	20	3.5	20	84	0	95	25	34	11	28	1.91
10255055--10255095	21	2.0	21	85	0	55	31	21	24	21	1.98
10257756--10257807	16	2.9	17	76	18	61	28	26	15	28	1.96
10257747--10257809	20	3.4	19	79	16	87	28	28	14	28	1.95
10258150--10258219	33	2.2	33	86	2	97	32	15	30	21	1.94
10263556--10263604	21	2.3	21	89	0	71	59	0	28	12	1.34
10263920--10263957	2	20.0	2	84	10	53	50	0	0	50	1.00
10265525--10265725	32	6.3	32	81	2	181	31	21	11	34	1.89
10265525--10265726	64	3.2	64	80	7	241	31	21	11	35	1.89
10265525--10265725	96	2.1	95	81	4	226	31	21	11	34	1.89
10271154--10271231	32	2.4	32	85	8	97	43	6	6	43	1.55
10271433--10271493	30	2.0	30	84	6	79	49	11	3	36	1.55
10273144--10273199	3	18.7	3	100	0	112	33	0	0	66	0.92
10281698--10281759	21	3.0	21	90	0	97	51	27	4	16	1.64
10286515--10286567	26	2.0	26	100	0	106	33	7	26	32	1.84
10293569--10293841	123	2.2	123	86	3	381	30	17	18	33	1.94
10302917--10302989	21	3.5	21	80	9	87	36	16	21	24	1.94
10303478--10303892	55	7.6	55	86	1	548	38	19	15	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10304120--10304212	23	4.1	23	77	5	73	31	19	21	27	1.97
10304097--10304178	21	3.9	21	75	7	67	32	19	18	29	1.95
10304169--10304217	23	2.1	23	96	0	89	26	18	28	26	1.98
10308033--10308072	21	1.9	21	85	10	55	32	5	5	57	1.42
10310928--10310971	20	2.3	19	84	4	52	38	2	25	34	1.68
10312399--10312588	39	4.9	39	79	2	195	24	16	27	30	1.97
10312401--10312588	77	2.4	78	81	0	216	24	17	27	30	1.97
10312932--10312966	18	1.9	18	88	11	54	54	0	2	42	1.15
10318184--10318227	19	2.3	20	80	11	56	36	0	25	38	1.56
10318522--10318626	52	2.0	52	100	0	210	48	9	17	24	1.76
10320111--10320160	24	2.1	24	96	0	91	52	4	10	34	1.54
10320196--10320248	22	2.2	24	83	9	65	35	0	1	62	1.06
10321894--10321936	20	2.3	19	80	8	52	30	16	27	25	1.97
10323814--10323875	29	2.1	29	82	5	72	35	16	8	40	1.78
10323813--10323877	30	2.2	29	78	8	69	33	16	7	41	1.77
10324575--10324632	31	1.9	31	92	3	100	34	34	3	27	1.74
10329568--10329694	59	2.2	59	83	0	155	31	24	14	29	1.95
10333866--10333896	15	2.1	15	100	0	62	48	19	6	25	1.72
10336286--10336330	22	2.0	22	86	0	63	35	6	13	44	1.70
10347390--10347462	29	2.4	31	77	8	80	31	20	6	41	1.79
10349474--10349551	30	2.6	31	78	11	76	30	16	6	46	1.72
10357010--10357067	22	2.6	22	94	0	98	31	15	22	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10357562--10357831	47	5.8	47	92	2	384	44	13	21	19	1.85
10357569--10358081	94	5.3	94	80	11	532	45	13	21	19	1.84
10357666--10357992	161	2.0	161	89	1	494	44	13	21	20	1.85
10357713--10357943	114	2.0	114	88	1	347	44	13	21	20	1.86
10357751--10357898	67	2.2	67	88	0	233	43	14	22	20	1.87
10357818--10358081	47	5.6	47	91	1	406	45	12	21	20	1.84
10357615--10358043	208	2.1	207	89	1	644	45	13	21	20	1.84
10358489--10358544	29	1.9	29	92	0	94	53	10	12	23	1.69
10360644--10360683	2	20.0	2	100	0	80	50	0	0	50	1.00
10365841--10365870	2	15.0	2	100	0	60	50	0	0	50	1.00
10368619--10368691	20	3.3	20	73	23	74	46	9	23	20	1.80
10368612--10368847	47	5.1	47	89	2	343	47	11	19	21	1.81
10368755--10368833	20	3.6	20	71	21	68	44	10	24	21	1.83
10376739--10376778	21	2.0	21	90	5	64	37	2	0	60	1.11
10377160--10377220	25	2.4	25	86	10	81	34	3	0	62	1.12
10380174--10380226	26	2.0	26	100	0	106	13	11	30	45	1.78
10382332--10382384	20	2.6	21	79	8	65	62	0	9	28	1.26
10383284--10383312	12	2.3	13	94	5	51	68	0	0	31	0.89
10388951--10389002	24	2.1	25	86	10	72	36	5	0	57	1.23
10389958--10390013	20	2.9	19	82	12	53	37	21	23	17	1.94
10393688--10393743	20	2.8	19	71	7	58	66	1	8	23	1.30
10393704--10393787	10	9.0	9	73	23	68	65	1	9	23	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10393705--10393795	27	3.4	27	95	0	164	64	1	9	24	1.30
10393719--10393795	17	4.3	18	70	23	65	64	0	9	25	1.22
10394019--10394056	15	2.5	15	95	0	67	18	52	0	28	1.45
10394809--10394842	15	2.3	15	90	5	52	79	0	5	14	0.91
10394819--10394857	16	2.4	17	82	8	53	74	0	2	23	0.94
10394961--10395017	29	2.0	29	86	10	82	57	1	10	29	1.42
10394965--10395024	29	2.0	29	84	9	77	61	1	10	26	1.37
10395009--10395051	16	2.6	17	75	10	54	72	0	6	20	1.08
10396606--10396786	95	1.9	96	90	1	292	33	14	23	28	1.94
10396759--10396812	22	2.5	22	93	0	99	35	14	22	27	1.93
10397223--10397545	47	6.9	47	90	1	495	43	10	22	23	1.85
10397223--10397609	141	2.7	140	83	7	478	43	9	21	24	1.83
10409740--10409843	37	2.8	37	86	0	136	40	13	14	31	1.85
10410263--10410309	22	2.0	24	88	8	71	25	2	0	72	0.96
10410344--10410374	2	15.5	2	100	0	62	48	0	0	51	1.00
10410398--10410422	12	2.1	12	100	0	50	24	8	0	68	1.16
10410560--10410603	22	2.1	20	83	8	52	29	4	0	65	1.12
10410570--10410631	28	2.2	29	83	13	76	25	1	0	72	0.94
10410716--10410764	19	2.7	17	84	12	62	16	8	2	73	1.16
10411922--10411958	19	1.9	19	89	10	58	8	24	0	67	1.17
10415131--10415177	16	3.1	15	83	16	62	80	6	12	0	0.88
10415152--10415190	17	2.2	18	86	9	53	82	7	7	2	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10416808--10418061	106	11.9	106	90	2	1871	34	24	18	22	1.96
10418815--10418918	37	2.8	37	83	0	127	41	13	14	30	1.84
10419321--10419352	2	16.5	2	93	6	57	46	0	0	53	1.00
10419343--10419382	12	3.1	14	79	13	50	25	0	0	75	0.81
10419331--10419383	26	2.0	26	85	0	70	30	0	0	69	0.88
10419333--10419381	24	2.0	24	84	7	64	30	0	0	69	0.89
10419425--10419451	2	13.5	2	100	0	54	48	0	0	51	1.00
10419474--10419501	13	2.2	13	100	0	56	21	7	0	71	1.09
10419647--10419702	26	2.2	26	83	6	69	25	1	0	73	0.93
10419771--10419822	25	2.1	26	82	13	65	15	5	1	76	1.05
10419789--10419834	17	2.5	19	82	10	51	21	8	0	69	1.15
10421890--10422075	95	2.0	96	83	4	243	31	16	23	29	1.96
10422504--10422787	47	6.0	47	89	2	417	42	11	23	22	1.86
10422645--10422759	20	4.8	26	63	26	74	44	11	21	22	1.84
10423872--10423930	30	2.0	29	83	3	73	47	6	3	42	1.46
10424076--10424121	2	23.5	2	95	4	85	50	0	0	50	1.00
10423760--10424233	38	12.8	40	74	16	314	46	7	2	43	1.46
10424118--10424142	12	2.1	12	100	0	50	52	8	0	40	1.31
10424105--10424253	38	4.0	38	76	11	123	44	8	3	42	1.51
10426431--10426456	11	2.4	11	100	0	52	53	11	0	34	1.37
10433949--10433974	11	2.4	11	100	0	52	53	11	0	34	1.37
10444727--10444794	21	3.2	21	95	0	118	50	17	10	22	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10444919--10444956	20	1.9	19	89	5	58	36	10	21	31	1.87
10450597--10450846	38	6.8	37	81	11	250	46	7	2	44	1.44
10450834--10450902	2	35.5	2	94	5	124	50	0	0	49	1.00
10450888--10450992	37	2.9	35	76	13	108	44	5	5	43	1.51
10451392--10451712	85	3.8	85	86	0	435	26	16	20	36	1.94
10451392--10451709	170	1.9	170	88	0	483	26	16	21	36	1.94
10457779--10457822	14	3.3	12	80	20	52	77	0	4	18	0.94
10457858--10457890	17	1.9	17	100	0	66	72	0	15	12	1.12
10457860--10457890	9	3.6	9	91	8	55	70	0	16	12	1.16
10458571--10458699	64	2.0	64	100	0	258	30	15	13	40	1.86

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