genome.fa.s8620.2.7.7.80.10.50.1000.46.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: 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  46  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)
9205760--9205841	32	2.5	31	82	7	92	71	0	2	25	0.98
9205773--9205843	29	2.3	30	80	9	81	71	0	0	28	0.86
9205913--9206242	38	8.5	38	80	13	302	42	9	3	44	1.53
9206221--9206256	13	2.8	13	100	0	72	52	8	0	38	1.32
9206270--9206304	2	17.5	2	100	0	70	51	0	0	48	1.00
9207017--9207419	85	4.7	85	86	0	511	25	17	20	35	1.95
9211823--9211859	17	2.2	17	90	9	58	75	0	16	8	1.02
9212896--9212942	21	2.4	18	89	10	67	70	0	10	19	1.16
9212897--9212949	20	2.9	17	84	15	63	66	0	11	22	1.24
9213871--9214165	38	7.6	38	81	10	298	44	8	2	45	1.46
9214033--9214205	38	4.6	36	83	8	129	41	8	4	45	1.54
9215063--9215112	26	2.0	26	84	11	68	34	4	6	56	1.43
9226806--9226963	85	1.9	85	87	0	235	30	17	17	34	1.94
9226884--9227012	65	2.0	65	89	6	199	28	13	21	36	1.91
9226971--9227060	45	2.0	45	95	0	162	26	8	28	35	1.87
9226925--9227329	202	2.0	202	99	0	792	27	11	25	35	1.90
9227037--9227204	92	1.8	92	89	0	264	27	11	27	33	1.91
9227173--9227262	45	2.0	45	93	0	153	26	8	27	36	1.86
9227756--9227789	2	17.0	2	93	0	59	47	2	0	50	1.16
9231560--9231877	65	4.9	65	89	1	440	27	15	24	32	1.95
9232233--9232270	2	19.0	2	100	0	76	50	0	0	50	1.00
9233736--9233774	14	2.8	14	88	7	53	61	0	5	33	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9233813--9233891	10	7.9	10	81	0	59	30	16	7	45	1.75
9233828--9233894	5	13.4	5	80	0	53	31	17	5	44	1.73
9233816--9233881	15	4.4	15	78	0	51	30	15	9	45	1.77
9233811--9233894	25	3.4	25	77	0	69	32	15	7	45	1.73
9233811--9233894	20	4.2	20	81	0	78	32	15	7	45	1.73
9234152--9234535	186	2.1	181	91	2	608	42	3	9	44	1.54
9235583--9235632	18	2.6	19	81	18	59	52	4	2	42	1.31
9236656--9236681	2	13.0	2	100	0	52	50	0	0	50	1.00
9237316--9237366	3	17.3	3	95	4	95	35	0	0	64	0.94
9239681--9239738	17	2.9	19	73	26	50	32	1	1	63	1.14
9244347--9244372	2	13.0	2	100	0	52	50	0	0	50	1.00
9244665--9244708	17	2.5	17	88	7	61	77	0	22	0	0.77
9249038--9249196	54	3.0	54	81	9	186	37	13	22	27	1.91
9249564--9249619	23	2.5	22	88	5	94	35	10	14	39	1.81
9250179--9250339	64	2.6	64	93	3	265	39	11	13	35	1.81
9250365--9251141	76	10.4	76	91	4	1226	23	19	22	34	1.96
9251083--9251185	45	2.3	45	91	3	172	25	22	17	34	1.95
9251312--9251354	9	4.7	9	86	13	61	34	0	0	65	0.93
9251312--9251351	14	2.9	13	89	10	62	32	0	0	67	0.91
9251894--9251969	37	2.0	38	97	2	145	17	19	23	39	1.92
9259555--9259607	27	2.0	27	86	13	76	26	7	13	52	1.66
9261523--9261582	29	2.0	30	90	3	95	15	15	10	60	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9263530--9263576	20	2.3	20	81	0	58	74	2	17	6	1.12
9264272--9264304	17	1.9	17	88	11	50	51	12	15	21	1.75
9264394--9264431	18	2.1	18	95	0	67	34	21	15	28	1.94
9267153--9267205	18	2.9	18	72	10	54	20	11	5	62	1.49
9270977--9271021	20	2.2	20	88	0	63	71	2	20	6	1.20
9273135--9273725	54	10.9	53	79	8	505	28	10	19	41	1.85
9273135--9273725	107	5.5	108	83	3	625	28	10	19	41	1.85
9273132--9273725	161	3.7	162	84	3	739	28	10	19	41	1.85
9293288--9293419	65	2.0	65	98	0	255	30	14	25	30	1.95
9294736--9294783	22	2.2	22	85	3	62	41	2	0	56	1.11
9296366--9296578	65	3.3	65	81	6	220	30	25	17	26	1.97
9302863--9302906	21	2.1	21	91	0	70	6	36	15	40	1.74
9303820--9304032	65	3.3	65	81	6	220	30	25	16	27	1.97
9306334--9306400	33	2.0	33	94	0	116	40	7	14	37	1.75
9306456--9306494	20	2.0	21	85	10	55	41	0	2	56	1.13
9307474--9307504	15	2.0	16	93	6	55	77	0	3	19	0.90
9307516--9307606	19	4.9	19	67	17	57	62	3	6	27	1.36
9307831--9307897	31	2.2	31	81	5	73	55	4	5	34	1.45
9308480--9308585	3	35.7	3	96	1	196	33	0	0	66	0.99
9310562--9310591	15	2.0	15	93	0	51	30	0	0	70	0.88
9311478--9311557	42	1.9	42	100	0	160	32	15	23	28	1.95
9315092--9315131	20	2.0	21	85	9	57	40	0	27	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9316224--9316315	21	4.3	21	82	5	105	26	16	20	36	1.93
9316224--9316315	43	2.2	42	88	2	130	26	16	20	36	1.93
9316224--9316382	21	7.3	21	74	9	99	25	15	22	36	1.94
9321527--9322230	134	5.2	134	85	1	831	33	21	16	28	1.95
9324923--9324960	3	12.7	3	100	0	76	65	0	0	34	0.93
9333293--9333334	21	2.0	21	95	0	75	35	33	2	28	1.70
9333386--9333770	192	2.0	192	98	1	754	32	23	15	29	1.95
9345083--9345128	21	2.2	21	92	3	76	10	15	30	43	1.81
9345158--9345210	21	2.5	21	96	0	97	28	22	22	26	1.99
9345187--9345281	47	2.0	48	97	2	183	36	18	12	31	1.89
9346250--9346301	16	3.2	17	72	22	58	42	0	21	36	1.53
9347452--9347523	23	3.0	23	80	8	74	48	1	0	50	1.09
9347786--9347854	29	2.2	33	82	10	83	42	1	2	53	1.24
9352794--9352825	2	16.0	2	100	0	64	50	0	0	50	1.00
9354942--9354971	15	2.0	15	93	0	51	56	6	3	33	1.42
9356273--9356316	22	2.0	23	86	13	65	25	29	20	25	1.99
9356306--9356341	12	2.9	12	95	4	63	25	33	22	19	1.97
9356508--9356562	21	2.6	21	97	0	101	38	38	7	16	1.76
9357628--9357743	60	1.9	60	81	6	137	28	22	22	26	1.99
9361235--9361668	219	2.0	219	93	0	742	38	14	7	39	1.74
9362672--9362714	17	2.5	17	84	0	59	16	0	41	41	1.48
9363939--9364003	34	1.9	34	90	0	103	23	29	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9366232--9366291	31	1.9	31	93	0	102	40	6	8	45	1.61
9366927--9367217	40	7.3	40	72	19	130	55	2	0	41	1.18
9366980--9367217	64	3.7	64	95	0	413	55	2	0	42	1.17
9367048--9367135	12	7.0	12	70	14	61	55	4	0	39	1.20
9366951--9367162	104	2.0	104	83	8	263	55	2	0	41	1.16
9366996--9367199	24	7.9	26	74	17	124	54	2	0	42	1.17
9367723--9367886	60	2.7	58	79	11	172	33	21	4	39	1.75
9368865--9368905	21	2.0	21	100	0	82	24	7	39	29	1.82
9368999--9369069	22	3.1	21	76	15	63	36	4	0	59	1.17
9375841--9375965	67	1.9	67	85	5	173	37	16	8	38	1.78
9377599--9377737	29	4.7	30	70	10	90	39	4	23	32	1.74
9377543--9377737	60	3.3	58	78	9	157	37	5	24	32	1.79
9379131--9379232	23	4.4	23	81	2	125	35	25	23	15	1.94
9382017--9382131	57	2.0	57	100	0	230	23	15	24	36	1.94
9384862--9384934	23	3.2	23	84	0	101	16	26	24	32	1.96
9384870--9384948	23	3.4	23	77	6	81	15	25	27	31	1.95
9387027--9387069	19	2.3	19	95	0	77	32	32	6	27	1.84
9392849--9392910	23	2.7	23	87	0	88	16	29	27	27	1.97
9395226--9395323	46	2.1	46	86	3	135	35	20	23	20	1.96
9395227--9395313	23	3.8	23	78	0	93	36	21	21	19	1.95
9398137--9398353	30	7.3	30	76	5	165	35	9	2	52	1.47
9398139--9398309	89	1.9	88	82	8	213	36	9	2	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9398325--9398422	50	2.0	48	84	11	128	34	3	3	59	1.29
9409293--9410730	5	299.8	5	86	11	1984	60	20	1	17	1.44
9415283--9415315	2	16.5	2	93	0	57	48	0	3	48	1.17
9418046--9418377	160	2.1	159	95	4	598	24	25	4	45	1.71
9420353--9420414	2	32.5	2	90	9	103	48	0	0	51	1.00
9420473--9420511	2	19.5	2	100	0	78	48	0	0	51	1.00
9421605--9421765	64	2.5	64	81	7	184	24	23	18	34	1.96
9422831--9423124	7	42.6	7	80	12	224	82	2	13	1	0.81
9422841--9423120	31	9.1	31	76	17	180	83	1	13	1	0.80
9422831--9423124	41	6.9	43	79	15	251	82	2	13	1	0.81

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