genome.fa.s72.2.7.7.80.10.50.1000.20.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  20  of  39  ( 4596 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)
2980577--2980621	21	2.2	21	88	4	65	42	15	8	33	1.78
2986860--2986940	36	2.2	36	86	0	117	32	32	14	20	1.93
2989230--2989293	32	2.0	32	96	0	119	28	12	26	32	1.93
2992941--2992991	20	2.5	20	87	6	66	52	0	5	41	1.25
2993272--2993314	16	2.7	16	82	10	52	53	0	0	46	1.00
2993994--2994032	8	4.4	9	81	18	55	33	0	0	66	0.92
2994532--2994557	12	2.2	12	100	0	52	65	7	0	26	1.20
2994530--2994630	29	3.3	29	73	13	80	61	6	0	31	1.22
2994634--2994705	4	19.5	4	79	11	57	0	18	0	81	0.68
2994635--2994706	7	10.4	7	77	14	51	0	19	0	80	0.71
2994630--2994695	24	2.8	22	82	14	87	0	15	0	84	0.61
2994630--2994702	27	2.7	27	91	2	119	0	16	0	83	0.64
2994435--2995108	336	2.0	334	90	8	1086	40	9	7	43	1.64
2994966--2995026	4	16.5	4	83	10	60	0	16	0	83	0.64
2994967--2995035	28	2.4	29	87	7	104	0	17	1	81	0.77
2996487--2996535	21	2.3	21	75	0	53	55	8	4	32	1.48
2996583--2996629	11	4.4	11	81	7	53	72	2	0	25	0.96
2998480--2998518	18	2.2	18	86	9	53	41	5	0	53	1.23
2999135--2999199	14	4.9	14	75	14	66	46	0	0	53	1.00
2999135--2999180	5	9.8	5	81	13	62	41	0	0	58	0.98
3000199--3000247	18	2.5	20	83	9	66	44	0	2	53	1.12
3000203--3000247	20	2.4	18	81	7	54	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3000199--3000248	19	2.7	18	81	6	55	44	0	2	54	1.11
3000244--3000285	21	2.1	19	86	13	57	59	0	0	40	0.97
3000868--3000916	22	2.2	22	100	0	98	51	4	12	32	1.58
3000972--3001004	11	3.3	10	88	12	50	60	0	36	3	1.12
3001497--3001536	15	2.5	16	88	8	55	57	0	0	42	0.98
3001497--3001539	16	2.6	17	85	10	63	55	0	0	44	0.99
3001594--3001673	35	2.3	37	76	10	87	65	5	2	27	1.27
3002161--3002199	18	2.0	20	90	9	64	28	0	2	69	1.02
3004485--3004693	97	2.2	96	86	4	294	35	11	22	29	1.90
3006894--3007016	51	2.4	51	90	4	187	43	11	16	28	1.82
3007034--3007088	20	2.7	21	85	5	76	32	14	10	41	1.81
3007034--3007107	21	3.6	20	87	7	78	33	13	10	41	1.79
3008707--3008735	5	6.0	5	92	8	51	82	0	0	17	0.66
3009275--3009322	22	2.2	22	100	0	96	16	14	16	52	1.76
3011833--3011902	22	3.0	23	81	12	72	52	0	0	47	1.00
3012580--3012663	15	6.1	15	70	22	60	61	1	0	36	1.04
3012647--3012732	18	4.6	18	68	27	54	56	0	0	43	0.99
3012650--3012694	23	1.9	24	90	4	74	57	0	0	42	0.98
3012641--3012761	34	3.5	34	77	10	111	60	0	0	39	0.97
3012705--3012771	6	11.2	6	77	15	50	62	0	1	35	1.04
3012665--3012722	18	3.5	17	74	25	61	56	0	0	43	0.99
3012597--3012778	17	9.8	18	68	18	56	62	0	0	36	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3014053--3014120	29	2.3	29	77	20	70	26	4	5	63	1.36
3014952--3015017	27	2.5	28	73	16	68	46	1	0	51	1.10
3018438--3018476	9	4.3	9	83	0	51	53	0	0	46	1.00
3018553--3018594	9	4.8	9	79	2	50	50	0	0	50	1.00
3019004--3019029	2	13.0	2	100	0	52	50	0	0	50	1.00
3019719--3019835	45	2.6	45	93	0	198	22	0	24	52	1.47
3024789--3024887	5	19.4	5	71	20	55	40	0	1	58	1.05
3024756--3024822	26	2.6	25	80	4	71	44	0	1	53	1.09
3024771--3024876	55	1.9	57	81	14	132	43	0	1	54	1.11
3024804--3024874	25	2.8	26	78	19	87	43	0	1	54	1.08
3030352--3030416	30	2.1	30	85	2	85	44	3	1	50	1.26
3030338--3030406	15	4.5	15	72	15	52	43	4	1	50	1.30
3035498--3035535	19	2.0	19	85	10	51	21	15	26	36	1.93
3039263--3039315	21	2.5	21	90	3	79	32	7	1	58	1.37
3039263--3039325	21	3.0	21	86	6	74	36	7	1	53	1.40
3039929--3039966	18	2.2	18	85	4	51	55	0	7	36	1.29
3044148--3044211	31	2.1	31	82	5	76	59	0	0	40	0.97
3044243--3044285	21	2.2	20	84	16	54	48	0	2	48	1.14
3044370--3044406	16	2.2	17	90	4	58	48	0	0	51	1.00
3045737--3045777	18	2.3	18	87	8	57	60	0	0	39	0.96
3045692--3045772	42	2.0	39	83	11	101	53	0	0	46	1.00
3046206--3046236	10	3.1	10	90	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3046282--3046357	33	2.3	33	84	4	91	38	1	0	60	1.05
3046260--3046338	21	4.0	20	77	9	65	35	1	0	63	1.03
3046273--3046363	18	5.1	18	75	15	82	38	2	0	59	1.10
3047043--3047069	8	3.4	8	100	0	54	66	0	0	33	0.92
3047062--3047120	28	2.1	29	83	3	75	50	0	0	49	1.00
3047092--3047136	23	2.0	23	95	0	81	60	0	0	40	0.97
3047061--3047137	29	2.6	30	75	10	77	55	0	0	44	0.99
3047095--3047164	23	3.3	20	80	8	68	57	0	0	42	0.99
3049351--3049419	34	2.0	34	88	0	102	30	8	11	49	1.69
3054283--3054336	27	2.0	27	88	0	81	37	11	20	31	1.88
3058400--3058450	2	25.5	2	87	0	75	47	3	1	47	1.32
3059294--3059454	22	7.1	23	67	21	72	59	2	0	38	1.11
3059301--3059366	8	8.2	8	70	23	50	60	1	0	37	1.06
3059334--3059400	28	2.4	29	77	7	75	56	1	0	41	1.08
3059277--3059395	46	2.6	47	80	12	131	59	2	1	36	1.21
3059414--3059475	11	5.7	11	79	7	65	62	0	0	37	0.95
3059392--3059448	17	3.3	17	73	11	53	56	3	0	40	1.17
3059301--3059473	20	9.3	19	67	21	66	58	2	0	39	1.11
3059295--3059478	56	3.3	56	70	10	151	58	2	0	39	1.10
3060075--3060120	16	2.7	17	83	10	58	41	6	0	52	1.27
3060595--3060639	23	2.1	22	84	12	58	55	0	0	44	0.99
3060715--3060746	16	2.0	16	93	0	55	43	0	3	53	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061262--3061359	45	2.2	46	94	1	171	42	9	8	39	1.66
3061712--3061791	29	2.9	27	78	10	81	43	10	0	46	1.37
3061694--3061811	28	4.1	27	70	8	74	42	8	0	49	1.33
3062674--3062714	3	13.7	3	94	0	73	0	36	0	63	0.95
3064275--3064359	15	5.4	16	69	19	54	56	0	0	43	0.99
3064257--3064330	28	2.8	28	76	8	75	55	0	0	44	0.99
3067801--3067839	13	3.3	13	83	16	50	53	0	0	46	1.00
3067784--3067831	24	2.0	25	84	15	66	45	2	2	50	1.25
3067912--3067946	19	1.9	18	88	11	54	45	0	8	45	1.34
3068111--3068158	22	2.2	22	82	14	55	45	4	6	43	1.48
3068272--3068320	25	2.0	25	83	0	62	48	2	2	46	1.25
3069294--3069318	2	12.5	2	100	0	50	52	0	0	48	1.00
3070792--3070837	19	2.4	20	79	17	53	45	4	0	50	1.21
3071834--3071867	15	2.2	16	89	5	52	47	0	0	52	1.00
3071877--3071932	20	2.6	22	70	16	55	62	0	1	35	1.06
3072178--3072221	18	2.3	19	84	7	54	47	0	2	50	1.13
3072501--3072605	30	3.5	31	78	7	101	38	7	5	48	1.56
3073694--3073759	7	9.6	7	74	23	52	56	4	0	39	1.20
3073693--3073750	29	1.9	29	83	13	73	56	5	0	37	1.21
3080119--3080150	13	2.5	13	89	0	55	59	0	0	40	0.97
3081739--3081927	96	2.0	94	81	6	220	25	11	8	53	1.66
3082692--3085069	658	3.6	658	94	1	4099	34	13	10	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082692--3085069	660	3.6	659	94	0	4110	34	13	10	41	1.79
3087222--3087358	8	17.5	8	68	22	62	40	0	0	58	1.03
3087223--3087353	10	13.4	10	68	20	73	41	0	0	58	1.04
3087219--3087352	11	13.4	10	69	22	70	41	0	0	58	1.03
3087226--3087352	41	3.3	38	74	17	93	40	0	0	58	1.04
3087256--3087352	16	6.1	16	77	16	87	37	1	0	61	1.03
3087220--3087325	54	2.0	54	85	7	144	42	0	0	56	1.05
3087219--3087352	6	22.7	6	71	16	86	41	0	0	58	1.03
3087202--3087358	35	4.3	36	70	20	110	42	1	0	56	1.07
3087623--3087665	2	21.0	2	95	4	77	48	2	0	48	1.14

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