genome.fa.s7.2.7.7.80.10.50.1000.16.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  16  of  37  ( 4421 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)
2888262--2888443	78	2.3	79	79	5	183	30	24	11	32	1.91
2890074--2890266	32	6.2	32	72	11	114	46	8	20	24	1.79
2890128--2890266	31	4.5	31	79	7	133	47	9	19	23	1.78
2890092--2890285	63	3.1	63	80	9	175	46	8	21	23	1.79
2890348--2890454	32	3.4	32	80	7	137	43	10	22	23	1.83
2890442--2890517	33	2.3	32	80	4	89	44	13	19	22	1.85
2890789--2890831	21	2.1	20	86	4	59	34	6	20	37	1.80
2894755--2894835	16	4.9	16	76	11	83	53	1	2	43	1.22
2896748--2896994	117	2.1	117	96	1	458	27	28	14	29	1.95
2896865--2897208	134	2.6	128	96	2	625	25	32	14	27	1.95
2898304--2898344	19	2.2	19	90	0	64	43	12	19	24	1.85
2899488--2899525	20	2.0	18	90	10	58	31	5	10	52	1.58
2902277--2902329	13	4.5	13	71	26	55	35	16	13	33	1.88
2902277--2902342	33	2.0	33	85	5	89	33	19	13	33	1.91
2902375--2902401	13	2.1	13	100	0	54	40	14	14	29	1.86
2906938--2906969	16	2.0	17	88	11	50	15	21	12	50	1.77
2911044--2911070	13	2.1	13	100	0	54	40	14	14	29	1.86
2912902--2912971	22	3.2	22	79	0	68	37	7	8	47	1.62
2913097--2913169	21	3.4	21	79	7	67	21	9	24	43	1.82
2913109--2913169	21	2.9	20	78	9	68	21	9	26	42	1.84
2914584--2914614	10	3.0	10	90	9	53	58	3	0	38	1.15
2915481--2915527	22	2.1	23	84	4	60	42	12	19	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2916424--2916550	20	5.8	20	70	18	74	40	12	14	32	1.83
2918448--2918502	19	2.8	19	80	2	65	30	18	14	36	1.91
2918548--2918577	13	2.3	13	94	0	51	33	20	10	36	1.86
2920408--2920534	50	2.5	51	83	1	157	29	14	12	42	1.83
2925008--2925048	21	2.0	21	86	13	59	21	12	17	48	1.79
2927903--2928012	19	5.5	20	84	7	109	42	27	8	21	1.81
2927903--2928009	20	5.3	20	83	9	103	43	25	8	22	1.81
2930398--2930467	22	3.2	22	87	0	113	37	10	12	40	1.77
2930681--2930725	21	2.1	21	87	0	63	28	11	24	35	1.90
2930685--2930753	21	3.3	21	69	18	56	26	11	21	40	1.87
2930817--2930864	22	2.2	22	84	0	60	35	10	10	43	1.73
2934559--2934685	63	2.0	63	87	3	184	46	14	14	24	1.82
2934757--2934910	64	2.5	62	80	3	173	48	15	14	22	1.81
2935794--2935829	17	2.1	17	89	0	54	47	11	5	36	1.63
2937227--2937312	31	2.9	31	78	11	83	32	8	6	52	1.58
2937270--2937326	29	2.0	29	89	0	87	35	7	5	52	1.51
2937410--2937445	2	18.5	2	88	5	56	52	0	0	47	1.00
2937623--2937813	46	4.1	46	82	4	222	29	14	9	46	1.76
2937629--2937812	92	2.0	94	84	4	248	30	14	9	44	1.78
2939076--2939102	2	13.5	2	100	0	54	0	0	48	51	1.00
2939481--2939536	25	2.3	26	78	12	64	67	5	1	25	1.21
2946780--2946804	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2946793--2946906	19	6.7	18	75	22	113	32	12	17	37	1.87
2946812--2946914	32	3.2	32	95	0	188	32	12	17	37	1.87
2946831--2946887	13	3.9	13	76	24	60	33	14	15	36	1.88
2946959--2946983	13	1.9	13	100	0	50	32	16	16	36	1.90
2946972--2947120	52	2.9	51	87	7	212	33	19	18	28	1.95
2959593--2959721	52	2.5	52	89	0	213	29	18	17	34	1.94
2959730--2959754	13	1.9	13	100	0	50	36	16	16	32	1.90
2959799--2959882	13	5.5	13	68	28	51	35	17	13	33	1.89
2959799--2959902	32	3.2	33	93	4	176	35	17	13	33	1.89
2964572--2964667	1	96.0	1	76	0	84	87	10	2	0	0.62
2964573--2964655	9	8.9	9	82	12	105	87	12	0	0	0.53
2964572--2964667	11	8.7	11	80	11	99	87	10	2	0	0.62
2964571--2964666	19	5.0	19	84	6	131	86	11	2	0	0.66
2964571--2964667	37	2.6	37	86	4	131	86	11	2	0	0.65
2964572--2964678	27	4.0	26	82	12	119	85	12	1	0	0.66
2964573--2964670	47	2.0	48	83	13	130	86	11	2	0	0.65
2964573--2964678	32	3.1	34	84	9	137	85	12	1	0	0.67
2966079--2966501	30	14.7	30	84	7	497	33	33	14	19	1.92
2966079--2966529	57	7.9	57	89	2	645	33	33	14	18	1.92
2966525--2966650	34	3.6	34	86	6	173	17	29	12	40	1.86
2966618--2966692	27	2.7	28	81	10	82	25	34	14	25	1.94
2966651--2966755	29	3.5	31	75	14	98	33	30	18	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2967018--2967085	19	3.9	19	76	21	76	36	11	13	38	1.81
2967039--2967063	13	1.9	13	100	0	50	36	16	16	32	1.90
2967020--2967082	32	2.0	32	93	0	108	36	12	14	36	1.84
2967125--2967150	13	2.0	13	100	0	52	30	15	15	38	1.88
2967105--2967171	33	2.0	33	88	0	98	25	14	16	43	1.86
2969647--2969848	52	3.9	51	81	3	215	29	23	11	35	1.91
2969516--2969767	131	1.9	131	82	6	314	29	25	13	32	1.93
2969647--2969851	103	2.0	103	81	4	243	29	23	11	34	1.91
2970903--2970997	49	1.9	49	89	0	145	25	24	16	33	1.96
2971793--2971857	19	3.8	18	71	24	68	32	10	16	40	1.84
2971795--2971864	32	2.2	32	94	0	122	32	11	17	38	1.85
2971923--2972071	52	2.9	51	84	7	194	33	19	17	29	1.95
2979070--2979122	27	2.0	27	92	0	88	41	18	24	15	1.89
2980241--2980294	21	2.4	24	76	20	62	48	0	0	51	1.00
2980253--2980292	21	1.9	21	90	10	64	40	0	0	60	0.97
2980996--2981054	24	2.4	25	86	5	77	55	1	3	38	1.26
2981042--2981085	21	2.0	22	91	4	72	50	0	2	47	1.13
2981375--2981426	17	3.1	16	79	15	61	51	0	1	46	1.12
2981372--2981480	38	3.0	34	73	22	96	50	0	1	47	1.11
2981377--2981414	18	2.0	20	90	10	62	47	0	0	52	1.00
2981385--2981474	38	2.3	40	83	11	116	48	0	2	48	1.13
2981792--2981848	30	1.9	29	86	10	80	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2981806--2981844	19	2.0	20	90	5	62	69	0	0	30	0.89
2982665--2982780	26	4.4	26	75	14	89	50	3	0	45	1.18
2982665--2982786	31	3.7	32	77	17	108	51	3	0	45	1.17
2982704--2982844	69	2.1	64	80	15	144	52	1	0	45	1.14
2987343--2987368	13	2.0	13	100	0	52	30	15	15	38	1.88
2987322--2987386	32	2.0	34	90	6	107	27	12	15	44	1.82
2987417--2987490	20	3.7	20	82	8	78	29	16	13	40	1.86
2990286--2990354	27	2.6	27	100	0	138	15	20	40	23	1.91
2992486--2992614	52	2.5	52	96	0	231	30	17	17	35	1.92
2992623--2992647	13	1.9	13	100	0	50	36	16	16	32	1.90
2992709--2992733	13	1.9	13	100	0	50	32	16	16	36	1.90
2992688--2992753	32	2.0	33	94	2	116	36	16	12	34	1.86
2993728--2993785	17	2.9	21	75	24	70	36	10	15	37	1.82
2995493--2995543	20	2.5	20	84	6	68	43	17	15	23	1.88
2998378--2999647	421	3.0	421	97	0	2425	32	17	13	36	1.89
3004253--3004318	33	2.0	33	85	5	89	34	16	13	34	1.88
3004275--3004305	13	2.4	13	94	0	53	35	12	16	35	1.87
3004351--3004422	20	3.7	19	85	7	74	40	16	13	29	1.87
3005214--3005255	13	3.2	13	86	0	57	38	23	11	26	1.90
3009268--3009306	3	13.0	3	100	0	78	33	33	0	33	1.58
3013737--3013834	20	4.7	20	79	12	81	33	11	11	43	1.76
3013758--3013804	24	2.0	24	95	4	87	29	8	12	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016720--3016745	13	2.0	13	100	0	52	30	15	15	38	1.88
3016700--3016763	32	2.0	33	90	3	103	28	14	18	39	1.90
3016700--3016770	19	4.0	18	72	25	62	26	12	21	39	1.89
3019297--3019361	13	5.0	13	90	0	103	35	15	13	35	1.87
3019297--3019360	26	2.5	26	97	0	119	34	15	14	35	1.88
3023274--3023318	21	2.1	21	84	8	56	22	20	4	53	1.63
3025538--3025563	13	2.0	13	100	0	52	30	15	15	38	1.88
3025518--3025581	32	2.0	33	87	3	94	29	14	17	39	1.88
3028763--3028801	20	1.9	21	89	5	62	56	10	5	28	1.54
3029609--3029933	98	3.2	97	73	16	345	43	4	4	46	1.46

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