genome.fa.s7926.2.7.7.80.10.50.1000.14.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  14  of  42  ( 5024 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)
2962069--2962367	55	5.5	54	80	7	175	33	18	23	25	1.97
2962199--2962340	51	2.7	53	76	11	150	35	20	23	19	1.95
2970381--2970420	21	1.9	21	89	0	62	15	27	25	32	1.95
2975525--2975571	19	2.3	21	82	7	62	31	0	2	65	1.04
2976514--2976552	15	2.5	15	83	4	51	66	0	0	33	0.92
2981399--2981774	185	2.0	185	92	1	531	45	8	3	42	1.50
2982945--2982975	15	2.0	16	93	6	55	32	3	0	64	1.09
2987152--2987221	23	3.0	23	87	0	104	12	1	27	58	1.43
2988529--2988566	3	12.7	3	83	10	51	60	0	0	39	0.97
2988526--2988575	13	3.8	13	80	17	59	58	0	0	42	0.98
2988532--2988577	9	5.1	9	84	7	58	54	0	0	45	0.99
2988529--2988566	16	2.3	17	95	4	69	60	0	0	39	0.97
2989961--2990041	10	8.7	10	67	24	61	11	11	18	59	1.60
2989982--2990035	16	3.4	16	89	0	72	11	11	18	59	1.60
2989963--2990041	32	2.5	32	79	8	97	11	10	17	60	1.57
2989966--2990009	22	2.0	22	90	0	70	13	13	18	54	1.71
2993645--2993703	25	2.4	25	82	0	73	47	11	6	33	1.67
2994327--2994380	3	17.3	3	80	14	56	27	0	3	68	1.06
2994330--2994357	13	2.2	13	100	0	56	28	0	0	71	0.86
2997937--2997996	30	2.0	30	86	0	84	15	15	6	63	1.50
3002070--3002166	35	2.7	36	87	1	133	32	18	12	36	1.88
3002133--3002478	105	3.3	105	83	5	461	29	19	11	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3002430--3002548	36	3.4	34	79	6	114	30	20	12	36	1.90
3002448--3002549	36	2.9	36	82	4	129	33	19	11	35	1.88
3002795--3002855	28	2.2	28	91	5	97	34	8	13	44	1.73
3002762--3003030	146	1.9	144	91	5	445	32	12	14	40	1.83
3002945--3003073	30	4.1	30	71	21	95	33	12	13	40	1.83
3002990--3003115	37	3.6	37	69	23	103	30	11	11	46	1.77
3002960--3003126	67	2.5	67	92	1	275	29	11	11	46	1.77
3002958--3003168	67	3.2	66	85	5	241	29	12	12	45	1.79
3003157--3003218	25	2.3	27	76	17	67	20	12	16	50	1.78
3003944--3004006	30	2.2	29	83	11	76	38	17	12	31	1.87
3004089--3004185	28	3.4	28	82	15	101	25	15	13	45	1.83
3004104--3004185	28	2.9	27	82	13	103	24	14	14	46	1.82
3004251--3004494	46	5.6	44	73	10	189	25	29	19	25	1.99
3004231--3004524	129	2.3	129	96	0	552	25	30	19	25	1.98
3004726--3004782	3	18.3	3	81	13	62	28	0	3	68	1.06
3004722--3004782	13	4.8	13	78	11	65	27	0	3	68	1.05
3007664--3008082	42	9.4	42	72	15	297	47	8	20	24	1.77
3007664--3008078	44	9.3	42	71	16	246	46	8	20	24	1.78
3007806--3008083	94	2.9	94	84	4	337	46	7	21	24	1.77
3008601--3008635	2	17.5	2	100	0	70	48	0	0	51	1.00
3009218--3009295	6	12.8	6	98	1	147	0	48	16	34	1.47
3009633--3009661	10	2.9	10	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3011764--3011947	51	3.6	51	83	1	235	46	17	12	23	1.82
3011764--3011958	101	1.9	100	83	2	246	46	16	12	24	1.82
3012037--3012105	38	1.9	36	88	11	106	50	2	1	44	1.25
3012022--3012115	20	4.7	20	67	27	58	53	2	2	42	1.25
3012047--3012127	38	2.1	39	84	6	103	53	1	1	44	1.16
3012084--3012119	16	2.2	17	90	5	56	61	0	0	38	0.96
3012496--3012551	22	2.5	22	94	5	94	28	1	8	60	1.37
3014402--3014429	2	14.0	2	100	0	56	50	0	0	50	1.00
3024774--3024856	18	4.3	18	70	25	55	43	2	2	51	1.27
3024767--3024836	19	3.5	19	75	19	54	44	2	0	52	1.15
3025596--3025652	28	2.0	28	100	0	114	36	3	21	38	1.70
3025598--3025660	28	2.2	28	94	0	108	36	3	20	39	1.69
3025609--3025693	30	2.9	30	84	3	93	34	5	24	35	1.80
3026755--3026806	21	2.5	21	96	0	95	40	9	15	34	1.80
3028317--3028379	23	2.7	23	82	0	81	19	26	23	30	1.98
3032686--3032719	2	17.0	2	100	0	68	50	0	0	50	1.00
3039087--3039125	20	2.0	20	89	0	60	33	10	23	33	1.88
3042583--3042619	3	12.3	3	88	0	56	2	27	0	70	1.01
3047562--3047605	13	3.4	13	80	0	52	68	13	2	15	1.31
3049708--3049769	21	3.0	21	80	17	67	66	1	0	32	1.02
3050695--3050751	20	2.6	23	83	13	75	33	17	22	26	1.96
3056331--3056385	24	2.3	24	79	14	60	52	1	1	43	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3059835--3059874	21	1.9	21	90	10	64	25	5	7	62	1.42
3061469--3061534	9	7.3	9	70	13	55	39	0	3	57	1.14
3067813--3067849	2	19.0	2	94	5	67	51	0	0	48	1.00
3068134--3068176	14	3.1	14	76	10	52	27	11	4	55	1.55
3070227--3070274	10	4.8	10	94	0	87	25	31	2	41	1.67
3071962--3071996	18	1.9	18	88	0	52	25	20	22	31	1.98
3072488--3072559	26	3.0	24	68	27	62	26	6	4	62	1.39
3075984--3076010	12	2.2	12	100	0	54	55	7	7	29	1.55
3079532--3079577	24	1.9	24	95	0	83	43	19	15	21	1.87
3090838--3090863	11	2.4	11	100	0	52	46	0	46	7	1.31
3091970--3092033	2	32.0	2	100	0	128	50	0	0	50	1.00
3095582--3095630	25	1.9	26	83	4	64	10	6	0	83	0.80
3097108--3097242	43	3.1	42	82	10	173	30	20	17	31	1.96
3097108--3097242	44	3.1	42	84	8	164	30	20	17	31	1.96
3099119--3099161	23	1.9	22	90	4	68	13	11	4	69	1.33
3099487--3099541	25	2.2	25	87	6	76	80	14	5	0	0.89
3099487--3099534	17	2.9	15	77	19	51	83	12	4	0	0.79
3099487--3099554	24	2.8	24	84	4	75	77	14	4	2	1.04
3103829--3103871	23	1.9	22	90	4	68	13	11	4	69	1.33
3104721--3104751	15	2.1	15	93	0	53	29	6	19	45	1.75
3108240--3108282	21	2.0	22	91	8	72	53	0	0	46	1.00
3116995--3117115	36	3.3	36	83	8	147	44	18	4	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3121109--3121143	16	2.1	17	89	5	54	42	22	0	34	1.54
3121550--3121667	37	3.2	36	84	4	148	44	17	4	33	1.69
3121596--3121659	20	3.4	20	66	29	59	46	18	3	31	1.65
3121551--3121660	35	3.1	35	86	3	141	44	18	3	33	1.67
3128092--3128127	15	2.4	15	90	0	54	44	2	0	52	1.15
3128087--3128156	15	4.3	15	73	21	52	42	1	0	55	1.08
3128116--3128213	42	2.4	39	85	9	126	44	0	1	54	1.07
3128084--3128192	57	2.0	55	82	10	134	43	0	0	55	1.12
3128182--3128225	21	2.1	21	87	8	63	52	0	0	47	1.00
3131460--3131486	14	1.9	14	100	0	54	48	7	0	44	1.31
3133591--3133626	3	12.0	3	100	0	72	66	0	0	33	0.92
3134143--3134214	31	2.3	31	85	0	90	41	15	11	31	1.82
3135833--3135901	23	3.0	23	84	0	84	28	26	26	18	1.98
3138870--3138921	12	4.6	11	78	19	54	5	36	0	57	1.23
3140773--3140812	16	2.7	14	85	14	62	60	0	0	40	0.97
3140780--3140819	16	2.5	16	95	0	71	52	0	0	47	1.00
3143229--3143397	58	2.9	57	81	5	196	43	16	3	36	1.65
3143232--3143398	87	1.9	88	86	6	241	43	17	3	35	1.66
3143214--3143399	29	6.4	29	80	5	178	43	17	3	35	1.66
3143394--3143445	18	2.9	18	85	0	68	9	25	48	17	1.77
3143422--3143446	13	1.9	13	100	0	50	12	24	48	16	1.79
3150759--3150888	60	2.2	59	82	6	156	44	18	2	34	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3150759--3150887	30	4.3	29	80	11	127	44	17	2	34	1.62
3155324--3155356	15	2.1	16	94	5	59	51	18	24	6	1.68
3159101--3159161	26	2.3	26	94	0	104	27	26	13	32	1.93
3163929--3164261	176	1.9	176	85	3	461	36	16	16	30	1.91
3171663--3171712	2	25.5	2	95	4	93	50	0	0	50	1.00
3173776--3174125	36	9.2	35	78	13	306	44	3	6	45	1.45
3173805--3174125	115	2.8	110	81	10	362	45	3	6	45	1.44
3174220--3174254	13	2.6	13	90	4	52	22	0	2	74	0.95
3174217--3174262	19	2.3	20	88	3	67	23	0	2	73	0.94
3175483--3175584	20	4.8	20	68	21	57	22	5	3	67	1.29

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