genome.fa.s8242.2.7.7.80.10.50.1000.53.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  53  of  73  ( 8740 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)
12629553--12629586	9	3.7	9	96	4	59	73	0	14	11	1.10
12632775--12632810	18	2.1	17	89	5	54	38	0	19	41	1.52
12635617--12636443	200	4.1	199	86	3	1046	38	14	14	33	1.86
12639736--12639770	18	1.9	18	88	0	52	25	31	20	22	1.98
12641801--12641829	2	14.5	2	100	0	58	51	48	0	0	1.00
12641829--12641865	2	18.5	2	94	0	65	48	2	0	48	1.15
12642167--12642806	225	2.8	224	88	3	901	31	15	14	38	1.88
12644342--12644386	23	1.9	24	86	4	65	51	4	13	31	1.61
12645510--12645544	2	17.5	2	100	0	70	48	0	0	51	1.00
12662161--12662219	20	2.8	20	82	12	64	30	18	20	30	1.96
12666966--12667028	18	3.3	18	79	14	72	25	9	9	55	1.62
12666966--12667028	21	3.2	20	86	6	76	25	9	9	55	1.62
12667240--12667278	19	2.0	20	90	5	62	38	10	17	33	1.84
12668238--12668291	20	2.7	20	85	0	63	24	22	27	25	2.00
12669422--12669457	16	2.2	16	90	0	54	38	25	2	33	1.70
12669702--12669764	29	2.1	31	82	11	78	28	7	11	52	1.65
12669880--12669950	31	2.4	30	82	11	85	61	0	0	38	0.96
12671060--12671090	10	3.1	10	95	0	53	67	19	12	0	1.22
12681362--12681846	215	2.3	207	90	4	756	48	9	11	30	1.70
12682111--12682260	2	75.0	2	69	17	89	45	4	2	47	1.37
12682111--12682260	11	13.2	11	70	15	83	45	4	2	47	1.37
12682109--12682260	13	11.8	13	71	15	70	45	5	2	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12682315--12682473	22	7.4	22	70	17	86	44	1	5	49	1.34
12682322--12682379	11	5.5	11	75	24	63	51	0	3	44	1.18
12682289--12682478	64	3.0	64	73	11	174	44	2	5	46	1.41
12682610--12682634	13	1.9	13	100	0	50	40	8	12	40	1.72
12682609--12682665	21	2.6	22	86	5	71	47	8	7	36	1.62
12682660--12682709	24	2.1	24	85	7	66	38	8	10	44	1.68
12682705--12682741	18	2.1	18	89	0	56	51	5	0	43	1.24
12683001--12683064	16	3.7	16	71	18	56	42	7	9	40	1.66
12683003--12683076	37	2.1	36	82	5	87	41	9	9	39	1.70
12683034--12683168	56	2.4	56	80	11	159	42	9	6	40	1.64
12683097--12683155	22	2.7	22	78	17	68	42	8	5	44	1.57
12683294--12683384	43	2.2	40	86	7	119	42	6	3	47	1.46
12683311--12683393	21	3.9	21	70	14	71	42	6	4	46	1.49
12683265--12683449	31	5.8	30	72	22	137	40	4	4	50	1.43
12683439--12683496	28	2.1	27	93	3	98	48	0	0	51	1.00
12683229--12683496	131	2.0	131	79	11	291	42	4	3	50	1.39
12683402--12683495	15	6.3	15	74	16	97	43	1	1	54	1.14
12685919--12685977	23	2.6	23	77	0	64	22	16	25	35	1.95
12686549--12686586	13	2.8	13	82	17	51	60	0	2	36	1.11
12686565--12686611	19	2.5	19	86	3	60	59	0	8	31	1.27
12695514--12695682	29	5.7	28	76	16	146	53	0	6	39	1.31
12695586--12695682	28	3.4	27	78	17	99	53	0	5	41	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12696043--12696547	186	2.7	185	89	5	723	32	14	11	41	1.81
12696045--12696609	186	3.0	186	84	5	586	33	14	11	40	1.81
12699118--12699160	20	2.2	20	91	0	68	46	6	0	46	1.30
12700136--12700190	15	3.4	16	85	7	76	25	30	30	12	1.93
12701576--12701611	16	2.2	16	90	0	54	30	13	19	36	1.91
12701621--12701679	28	2.1	29	90	3	93	40	10	22	27	1.85
12701811--12701908	47	2.1	46	88	1	142	18	18	25	37	1.93
12701811--12701913	23	4.4	23	85	2	125	17	18	27	36	1.93
12701833--12701942	24	4.7	25	84	8	101	18	22	24	34	1.96
12701904--12701955	24	2.2	23	86	3	68	19	25	21	34	1.96
12706262--12706301	16	2.5	16	95	0	71	37	5	20	37	1.74
12707203--12707294	29	3.2	28	83	9	105	27	15	7	50	1.71
12711603--12711801	36	5.5	36	84	4	242	30	19	9	41	1.82
12711604--12711801	108	1.8	108	89	2	308	30	19	9	41	1.82
12711982--12712031	16	3.2	16	86	10	61	72	0	14	14	1.14
12711998--12712038	13	2.8	15	89	10	59	73	0	9	17	1.09
12712347--12712690	116	2.9	115	81	2	384	38	14	23	23	1.92
12712352--12712765	116	3.6	113	78	4	330	39	14	22	23	1.91
12714304--12714346	15	2.9	15	76	13	52	23	13	11	51	1.74
12714328--12714396	29	2.3	29	95	2	120	24	17	8	49	1.75
12716416--12716470	2	28.0	2	92	3	94	50	0	1	47	1.11
12717944--12718008	22	3.0	22	90	2	105	24	33	23	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12719305--12719348	2	22.0	2	100	0	88	50	0	0	50	1.00
12720726--12722664	988	2.0	987	99	0	3833	32	15	16	35	1.90
12725439--12725492	28	2.0	27	88	3	81	22	0	1	75	0.89
12725658--12725700	21	2.1	21	91	4	70	76	0	0	23	0.78
12725658--12725708	20	2.5	21	87	3	68	74	1	0	23	0.92
12725675--12725716	15	2.7	15	88	3	57	71	2	0	26	0.98
12729545--12729590	3	15.0	3	90	4	74	63	0	2	34	1.07
12730194--12730233	2	20.0	2	100	0	80	50	0	0	50	1.00
12732660--12732738	41	1.9	42	84	7	108	36	20	20	22	1.95
12732079--12733019	257	3.7	258	88	1	1293	33	18	16	31	1.93
12734790--12734885	26	3.5	27	77	17	101	6	15	1	77	1.03
12734791--12734891	17	5.5	17	71	17	69	5	16	0	76	1.04
12734802--12734868	15	4.5	14	76	16	55	8	14	0	76	1.02
12734793--12734886	18	5.7	17	67	24	51	6	15	1	76	1.04
12734790--12734866	29	2.8	28	81	15	88	7	15	0	76	1.00
12734817--12734859	22	2.0	22	85	0	59	9	13	0	76	1.01
12735665--12735725	31	2.0	31	83	6	79	39	8	24	27	1.84
12737309--12737340	15	2.1	15	100	0	64	25	12	25	37	1.91
12737617--12737655	20	2.0	20	85	10	53	20	25	7	46	1.77
12737975--12738014	19	2.1	19	86	9	55	50	12	15	22	1.77
12739785--12739832	20	2.4	20	89	0	69	29	25	12	33	1.92
12740060--12740116	18	2.9	19	70	12	53	47	8	10	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12743261--12743309	20	2.5	20	93	0	80	26	20	14	38	1.91
12745670--12745722	21	2.5	22	82	11	58	71	1	0	26	0.96
12745694--12745735	12	3.4	12	81	15	50	66	0	0	33	0.92
12745679--12745741	31	2.0	31	85	11	85	68	0	0	31	0.90
12745693--12745748	19	3.1	18	82	14	62	64	1	0	33	1.04
12747214--12747268	24	2.3	24	78	3	58	54	1	7	36	1.39
12748235--12748283	2	24.5	2	100	0	98	51	48	0	0	1.00
12748283--12748312	2	15.0	2	100	0	60	50	0	0	50	1.00
12748587--12748785	110	1.8	110	87	2	301	26	21	16	36	1.94
12748587--12748811	110	2.0	110	85	1	299	26	21	16	36	1.94
12757572--12757611	20	2.0	20	95	0	71	42	10	10	37	1.72
12770091--12770150	29	2.1	29	96	0	111	23	11	13	51	1.73
12774778--12774837	29	2.1	29	96	0	111	23	13	11	51	1.73
12777051--12777239	55	3.5	53	83	9	220	34	17	18	29	1.94
12782650--12782721	35	2.0	36	84	7	94	40	8	20	30	1.82
12782812--12782907	23	4.3	21	73	12	59	23	12	26	37	1.91
12782860--12782907	22	2.2	21	85	10	62	20	10	29	39	1.86
12789726--12789776	23	2.3	22	90	6	77	21	13	29	35	1.92
12793218--12793250	13	2.4	14	90	5	50	18	3	0	78	0.87
12794643--12794692	10	5.1	10	78	11	50	80	0	16	4	0.87
12794648--12794693	18	2.6	18	82	6	58	80	0	13	6	0.89
12795544--12795572	13	2.3	13	94	5	51	62	0	6	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12795546--12795601	20	2.8	21	72	25	57	62	0	7	30	1.22
12797159--12797388	126	1.8	127	85	4	331	29	18	20	32	1.96
12799279--12799317	20	2.0	20	94	0	69	23	5	28	43	1.75
12803269--12803307	20	2.0	20	89	0	60	23	7	28	41	1.82
12805427--12805476	26	1.9	26	84	8	66	36	4	0	60	1.16
12809569--12810084	136	3.8	135	86	2	701	26	20	17	36	1.94
12809593--12810084	273	1.8	273	90	0	788	25	20	17	36	1.94
12811098--12811184	6	15.2	6	73	16	69	4	13	0	81	0.84
12811110--12811198	10	8.6	10	73	20	76	4	16	0	78	0.91
12811098--12811195	16	6.2	16	80	11	96	4	15	0	80	0.85

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