genome.fa.s9634.2.7.7.80.10.50.1000.14.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   74   75   76   77   78   

This is table  14  of  78  ( 9351 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)
3073982--3074070	45	2.0	44	91	2	142	38	15	16	29	1.90
3074031--3074077	23	2.0	24	87	4	69	44	14	14	25	1.84
3074090--3074194	30	3.5	30	73	10	97	57	19	6	17	1.61
3077369--3077408	16	2.4	16	83	8	53	72	2	0	25	0.97
3084064--3084116	21	2.5	21	96	0	97	43	16	15	24	1.87
3087321--3087360	2	20.0	2	100	0	80	50	0	0	50	1.00
3093474--3093628	60	2.6	60	81	4	161	41	9	18	30	1.81
3094412--3094475	30	2.1	30	88	11	96	60	1	0	37	1.06
3094413--3094471	9	6.2	9	83	16	75	62	1	0	35	1.05
3094413--3094471	20	3.1	18	84	15	75	62	1	0	35	1.05
3094411--3094461	15	3.4	15	74	15	52	62	1	0	35	1.06
3113942--3114004	23	3.0	20	71	15	63	52	15	4	26	1.63
3114099--3114152	29	1.9	27	92	3	81	53	11	12	22	1.70
3121910--3121952	20	2.3	19	80	11	52	27	30	4	37	1.77
3126902--3126926	13	1.9	13	100	0	50	12	24	8	56	1.62
3147420--3147583	49	3.3	51	78	10	158	33	18	6	40	1.77
3148321--3148349	2	14.5	2	100	0	58	48	0	0	51	1.00
3148632--3148686	22	2.5	22	85	5	67	14	9	25	50	1.72
3148632--3148698	11	6.0	11	73	1	53	13	8	25	52	1.69
3148634--3148698	33	1.9	34	84	3	87	13	9	24	52	1.70
3149127--3149200	37	2.0	38	84	7	98	59	6	1	32	1.32
3155048--3155091	23	1.9	23	85	0	61	54	6	15	22	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155083--3155147	30	2.2	30	83	5	78	69	0	4	26	1.08
3155099--3155155	14	3.9	15	82	15	66	73	0	1	24	0.92
3161267--3161306	21	1.9	21	85	10	55	35	0	0	65	0.93
3166761--3166785	4	6.2	4	100	0	50	24	0	24	52	1.48
3167909--3167972	23	2.8	23	90	0	101	26	26	28	18	1.98
3167988--3168194	100	2.1	99	90	5	319	34	24	14	26	1.94
3170771--3170831	21	3.0	20	75	4	59	42	1	0	55	1.09
3178706--3178751	2	23.0	2	100	0	92	50	0	0	50	1.00
3179014--3179048	18	1.9	18	88	0	52	22	20	31	25	1.98
3179603--3179652	21	2.3	22	93	3	84	28	22	28	22	1.99
3191212--3191254	19	2.3	19	100	0	86	34	4	13	46	1.65
3194548--3194639	41	2.2	41	92	1	148	18	16	18	46	1.84
3194870--3194916	22	2.1	23	88	4	69	44	2	0	53	1.12
3194882--3194980	50	1.9	50	84	10	128	50	1	1	47	1.14
3195481--3195536	14	3.9	14	73	13	51	33	17	3	44	1.66
3195467--3195509	20	2.1	21	83	12	54	34	16	4	44	1.68
3195480--3195534	29	1.9	28	92	3	92	32	16	3	47	1.64
3195481--3195529	14	3.4	14	75	5	53	34	16	4	44	1.66
3197260--3197316	28	2.0	28	100	0	114	29	17	21	31	1.96
3198168--3198197	14	2.1	14	93	0	51	33	3	13	50	1.58
3204579--3204616	3	12.7	3	100	0	76	34	0	0	65	0.93
3206179--3206340	30	5.4	30	81	3	184	18	13	7	60	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206179--3206340	61	2.7	60	82	3	193	18	13	7	60	1.56
3209415--3209566	30	5.0	30	76	5	144	19	12	6	61	1.52
3209415--3209490	33	2.4	32	84	6	93	15	13	3	67	1.38
3213837--3213881	24	1.9	24	90	4	74	20	26	24	28	1.99
3217278--3217381	45	2.3	45	100	0	208	38	20	19	22	1.94
3217322--3217465	64	2.3	63	81	7	173	33	19	22	24	1.97
3220857--3220905	21	2.3	22	79	6	57	53	4	4	38	1.39
3222419--3222472	20	2.7	20	77	11	74	27	31	14	25	1.95
3222480--3222526	21	2.2	21	88	0	76	23	25	14	36	1.93
3222517--3222586	19	3.6	20	77	9	65	35	22	14	27	1.93
3223467--3223520	24	2.2	24	90	0	81	20	16	20	42	1.89
3226042--3226128	19	4.4	20	76	5	97	42	20	18	18	1.89
3226138--3226212	20	3.8	20	83	0	96	20	18	24	37	1.94
3226221--3226281	20	3.1	19	88	2	77	19	22	16	40	1.90
3226759--3226807	23	2.1	24	84	3	64	34	4	12	48	1.59
3227090--3227175	38	2.2	39	93	2	147	46	20	13	18	1.83
3227495--3227531	14	2.6	14	91	8	58	62	18	0	18	1.34
3227524--3227559	13	2.8	12	91	8	54	44	19	0	36	1.51
3228960--3229055	21	4.6	21	71	3	68	26	17	32	23	1.97
3228974--3229053	42	1.9	42	82	5	99	23	18	33	23	1.97
3231251--3231295	14	3.2	14	75	12	56	11	11	33	44	1.75
3231545--3231587	22	2.0	22	90	0	68	30	13	32	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231707--3231882	20	8.8	20	73	14	123	23	15	25	35	1.95
3232835--3233030	66	3.0	66	92	0	329	46	9	10	32	1.71
3233832--3233884	21	2.5	21	84	0	70	20	26	18	33	1.96
3233874--3234028	20	7.7	20	88	1	193	39	18	20	21	1.93
3233874--3234051	60	2.9	60	80	7	189	37	19	19	23	1.94
3234227--3234291	22	3.0	22	80	8	78	26	38	13	21	1.91
3234659--3234728	20	3.5	20	88	3	79	14	17	25	42	1.86
3234676--3234730	20	2.8	20	91	0	83	10	16	23	49	1.77
3234695--3234738	20	2.2	20	87	0	61	13	13	20	52	1.74
3236592--3236751	20	8.6	20	75	18	132	42	21	18	17	1.89
3236717--3236757	20	2.0	20	90	0	64	34	19	14	31	1.92
3236916--3237034	21	5.9	20	86	3	132	21	21	19	37	1.94
3236920--3236979	19	3.1	19	95	2	102	21	20	20	38	1.94
3237515--3237542	2	14.0	2	100	0	56	50	0	0	50	1.00
3238243--3238335	21	4.6	20	78	4	96	38	18	24	18	1.92
3238240--3238335	41	2.3	41	98	0	183	39	17	23	18	1.92
3238243--3238335	20	4.6	20	78	4	96	38	18	24	18	1.92
3238324--3238418	20	4.7	20	77	2	82	35	24	16	23	1.95
3238321--3238398	41	1.9	41	83	0	102	41	21	15	21	1.90
3238601--3238644	22	2.0	22	100	0	88	22	45	13	18	1.84
3239078--3239122	22	2.1	22	87	4	65	20	6	17	55	1.64
3240732--3240775	20	2.2	20	87	0	61	34	27	22	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3242564--3242599	14	2.6	14	90	0	54	30	0	22	47	1.52
3242705--3242781	14	4.7	15	74	22	59	45	19	22	12	1.84
3242715--3242781	18	3.8	19	81	18	92	46	17	22	13	1.83
3242806--3242855	19	2.5	20	90	3	75	20	24	24	32	1.98
3244690--3244714	12	2.1	12	100	0	50	72	0	28	0	0.86
3246979--3247076	19	5.7	19	65	26	74	43	19	24	12	1.85
3246979--3247072	33	2.8	33	92	6	163	43	19	24	12	1.85
3247072--3247114	20	2.2	20	87	4	61	16	18	23	41	1.89
3247100--3247133	14	2.4	14	85	0	50	8	23	20	47	1.78
3247249--3247284	14	2.6	14	86	4	56	44	25	0	30	1.54
3248313--3248406	20	4.7	20	77	2	80	23	17	24	35	1.95
3248395--3248490	41	2.3	41	98	0	147	18	23	17	39	1.92
3248395--3248487	20	4.6	20	78	4	96	18	24	18	38	1.92
3254639--3254722	43	2.0	43	88	4	125	27	8	17	46	1.77
3262457--3262528	35	2.1	35	94	0	126	27	6	22	43	1.79
3263058--3263086	14	2.0	15	93	6	51	51	0	0	48	1.00
3263516--3263614	49	2.0	49	98	0	189	24	36	11	28	1.89
3272947--3272989	2	22.5	2	86	9	54	51	0	0	48	1.00
3273913--3273955	21	2.0	21	95	0	77	46	11	0	41	1.40
3274078--3274114	15	2.4	16	86	13	51	32	2	5	59	1.34
3274554--3274810	127	2.0	125	90	3	399	37	12	14	36	1.83
3275207--3275274	34	2.0	33	88	2	100	35	2	23	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287033--3287129	48	2.0	48	95	0	176	32	26	13	26	1.93
3288569--3288636	28	2.4	30	76	16	81	52	0	1	45	1.09
3288584--3288643	28	2.1	28	81	6	68	56	0	0	43	0.99
3288622--3288683	31	2.0	31	87	6	90	51	3	4	40	1.39
3288586--3288836	126	2.0	127	80	9	282	50	3	4	41	1.39
3288751--3288801	15	3.3	15	71	15	50	50	3	3	41	1.39
3288812--3288863	21	2.5	21	84	3	70	46	5	7	40	1.57
3288787--3288884	22	4.6	21	72	16	69	48	8	6	36	1.58
3288906--3289016	18	6.8	17	71	20	76	41	3	6	48	1.46
3288985--3289031	21	2.2	22	85	11	62	44	4	6	44	1.49

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   74   75   76   77   78