genome.fa.s8242.2.7.7.80.10.50.1000.15.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  15  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)
3113082--3113143	11	5.7	11	86	3	90	62	17	1	17	1.40
3114682--3114710	14	2.1	14	100	0	58	65	13	0	20	1.26
3114694--3114744	11	4.7	11	85	4	77	60	19	1	17	1.45
3119178--3119215	12	3.2	12	85	3	51	81	2	15	0	0.80
3121897--3121944	25	1.9	25	91	0	78	31	8	27	33	1.86
3124623--3124723	25	4.3	24	67	16	68	26	0	15	57	1.39
3124587--3124791	69	3.0	69	80	9	170	29	0	12	56	1.43
3124677--3124798	64	1.9	64	90	5	194	28	0	14	56	1.39
3128883--3128926	20	2.2	20	100	0	88	31	25	13	29	1.94
3130822--3130894	5	14.8	5	78	13	71	17	6	1	73	1.11
3130834--3130893	14	4.2	13	83	14	57	20	6	0	73	1.05
3130834--3130893	19	3.2	18	84	13	68	20	6	0	73	1.05
3130822--3130894	9	7.4	10	81	7	71	17	6	1	73	1.11
3132536--3132711	64	2.7	63	85	9	210	30	0	14	54	1.41
3134898--3134923	12	2.2	12	100	0	52	50	0	15	34	1.45
3135735--3135776	19	2.2	19	86	4	57	26	4	7	61	1.42
3139509--3139548	10	3.7	10	81	18	53	20	2	0	77	0.88
3142030--3142072	20	2.2	20	86	0	59	25	6	6	60	1.48
3142871--3142896	12	2.2	12	100	0	52	15	15	0	69	1.20
3146454--3146576	55	2.2	55	88	0	183	30	24	13	30	1.94
3146560--3147724	51	22.3	52	83	7	1163	23	26	18	30	1.97
3146570--3147724	156	7.4	156	85	6	1242	23	26	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3146533--3147727	210	5.7	209	91	2	1612	23	26	18	31	1.97
3149015--3149061	10	4.9	10	87	12	64	0	8	6	85	0.75
3149019--3149067	26	1.9	26	91	4	82	0	8	6	85	0.73
3149013--3149075	10	6.1	10	78	12	56	1	9	4	84	0.84
3149018--3149075	15	3.7	15	78	17	64	1	8	5	84	0.83
3156984--3157041	21	2.8	20	87	10	80	46	27	5	20	1.72
3165406--3165717	41	7.6	41	83	2	347	34	16	20	28	1.94
3165415--3165717	165	1.8	164	84	2	410	35	16	19	28	1.94
3169217--3169241	2	12.5	2	100	0	50	52	0	0	48	1.00
3171504--3171552	20	2.5	20	96	0	89	40	22	18	18	1.91
3172741--3172781	21	2.0	21	85	9	57	29	7	9	53	1.60
3174458--3174496	17	2.2	18	86	13	55	64	2	23	10	1.37
3186830--3187546	358	2.0	360	96	1	1341	40	12	18	28	1.87
3195621--3195668	18	2.7	18	86	0	78	66	0	0	33	0.92
3195621--3195668	12	4.0	12	77	0	60	66	0	0	33	0.92
3195893--3196285	37	10.7	37	68	9	221	38	9	20	32	1.84
3195881--3196173	73	4.1	71	81	4	302	37	9	20	32	1.86
3196457--3196491	15	2.3	15	95	0	61	65	8	2	22	1.34
3213025--3213060	16	2.2	16	90	0	54	77	5	0	16	0.94
3215061--3215105	16	2.8	16	100	0	90	20	20	26	33	1.97
3238023--3238078	20	2.8	20	94	0	85	30	12	25	32	1.92
3239135--3239177	18	2.3	19	88	8	70	27	13	6	51	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239048--3239282	120	2.0	120	94	0	416	30	17	14	38	1.89
3241361--3241398	18	2.1	18	85	9	51	7	31	0	60	1.25
3245186--3245251	29	2.2	30	81	10	73	28	13	10	46	1.76
3252485--3252511	14	1.9	14	100	0	54	14	3	22	59	1.51
3258766--3258806	21	2.0	21	95	0	73	51	24	4	19	1.66
3260116--3260321	81	2.6	80	81	9	233	31	21	17	30	1.96
3260204--3260321	40	2.9	41	68	14	100	33	24	16	25	1.96
3262337--3262389	26	2.1	26	82	3	63	52	5	3	37	1.43
3262468--3262548	31	2.6	31	76	5	85	41	1	13	43	1.52
3266273--3266589	173	1.8	170	89	7	498	46	11	4	38	1.58
3266688--3266747	30	2.0	30	83	9	77	43	5	16	35	1.70
3289565--3289643	39	2.0	40	90	5	124	24	25	20	30	1.98
3295654--3295815	81	2.0	81	93	0	279	31	16	24	27	1.96
3299759--3299802	21	2.1	21	82	0	52	45	11	4	38	1.61
3300902--3300985	25	3.4	25	75	9	100	41	5	5	46	1.52
3300894--3300991	49	2.0	49	100	0	196	42	6	6	44	1.54
3301112--3301173	3	20.3	3	96	3	115	66	0	1	32	1.02
3302982--3303035	25	2.1	26	86	3	74	50	7	0	42	1.30
3303100--3303172	32	2.3	32	80	7	85	68	1	1	28	1.06
3303063--3303232	29	5.6	29	79	15	157	61	0	1	35	1.11
3303063--3303395	30	11.0	30	74	12	153	57	1	4	36	1.31
3303698--3303751	23	2.3	23	90	0	81	14	24	14	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305741--3305781	14	2.9	14	77	0	55	24	26	19	29	1.98
3305740--3305801	28	2.2	28	83	11	83	19	29	20	30	1.97
3305852--3305905	23	2.3	23	81	6	65	24	20	14	40	1.90
3306576--3306700	43	2.9	43	79	0	142	24	28	20	27	1.99
3308051--3308084	12	2.7	13	86	9	52	41	5	8	44	1.60
3309809--3309841	12	2.6	13	90	4	50	45	6	12	36	1.66
3318554--3318924	45	8.2	45	87	1	519	22	20	11	45	1.83
3319278--3319467	96	2.0	96	86	0	263	27	22	13	36	1.92
3325587--3325866	45	6.2	45	84	2	337	23	21	11	43	1.84
3325661--3325821	24	7.1	22	66	22	57	24	22	9	43	1.83
3325773--3325842	21	3.2	21	67	25	54	18	27	10	44	1.81
3326423--3326468	18	2.6	18	92	0	74	36	26	13	23	1.91
3337634--3337715	40	2.0	41	97	2	157	21	24	4	48	1.69
3338544--3338582	19	2.1	19	90	0	60	20	28	33	17	1.96
3338624--3338685	10	6.0	10	85	7	88	11	29	30	29	1.91
3342345--3342385	21	2.0	21	90	0	64	14	34	26	24	1.94
3343163--3343233	32	2.2	32	94	0	133	36	14	12	36	1.84
3346883--3346944	17	3.6	17	91	0	97	38	8	19	33	1.81
3346936--3346981	17	2.7	17	79	0	56	43	13	15	28	1.83
3348023--3348351	165	2.0	165	88	0	487	31	23	13	30	1.93
3353007--3353056	24	2.1	24	85	7	66	28	2	12	58	1.45
3356248--3356282	17	2.0	18	88	5	54	14	0	8	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358609--3358658	24	2.1	24	85	7	66	28	2	12	58	1.45
3374077--3374122	24	1.9	24	90	0	74	34	17	6	41	1.75
3374894--3374979	27	3.5	25	82	14	99	37	15	17	30	1.90
3374894--3374979	24	3.5	23	79	17	86	37	15	17	30	1.90
3376923--3376974	16	3.3	16	70	5	52	71	0	9	19	1.13
3376923--3377031	34	3.3	34	82	14	122	66	1	9	22	1.30
3377694--3377769	24	3.0	24	86	7	89	6	9	17	67	1.40
3377706--3377769	24	2.6	25	87	5	94	6	9	17	67	1.39
3378274--3378606	5	66.6	5	72	20	195	55	2	0	40	1.19
3378289--3378625	2	182.5	2	69	24	190	55	2	0	40	1.21
3378274--3378606	7	47.4	7	72	21	206	55	2	0	40	1.19
3378280--3378625	37	9.6	36	69	24	120	55	2	0	40	1.21
3378597--3378632	19	1.9	19	88	5	56	63	5	0	30	1.17
3379034--3379397	201	1.8	201	85	1	514	28	18	18	34	1.95
3385481--3385517	3	12.3	3	94	0	65	70	0	0	29	0.88
3392818--3392922	50	2.3	46	82	15	121	32	1	14	51	1.53
3394348--3394403	25	2.2	26	78	6	62	69	1	8	19	1.24
3395734--3395882	2	78.5	2	71	21	108	52	4	0	43	1.20
3395736--3395882	45	3.3	45	82	12	171	52	4	0	43	1.20
3396438--3396509	36	2.0	36	100	0	144	25	22	33	19	1.97
3396438--3396495	20	3.1	20	63	27	54	25	22	32	18	1.97
3397560--3397585	13	2.0	13	100	0	52	38	0	46	15	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3399171--3399381	86	2.4	86	80	7	241	36	16	18	28	1.92
3400958--3401034	40	1.9	39	92	2	127	38	14	10	36	1.80
3401508--3401630	51	2.4	51	86	0	156	29	22	4	43	1.74
3404740--3404865	47	2.8	45	86	5	182	38	7	22	30	1.83
3406203--3406264	27	2.3	27	100	0	124	29	22	11	37	1.89
3407704--3407768	17	3.8	17	82	9	87	76	3	16	3	1.03
3407707--3407766	6	10.3	6	73	7	52	76	3	16	3	1.05
3407707--3407819	33	3.3	33	79	15	115	73	1	17	7	1.14
3407707--3407809	34	3.0	34	81	14	115	72	1	18	6	1.16
3407719--3407787	22	3.5	20	74	20	56	72	1	18	7	1.15

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