genome.fa.s15.2.7.7.80.10.50.1000.19.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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   

This is table  19  of  25  ( 2909 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)
3045891--3045962	12	5.8	12	68	22	51	37	0	0	62	0.95
3053131--3053177	22	2.1	22	100	0	94	51	4	4	40	1.41
3053881--3053916	7	5.1	7	86	0	54	55	11	16	16	1.68
3056760--3056788	6	4.8	6	100	0	58	34	65	0	0	0.93
3060989--3061013	5	5.0	5	100	0	50	20	0	0	80	0.72
3068608--3068733	64	2.0	64	90	0	198	32	12	18	36	1.88
3071818--3071881	33	2.0	32	90	3	101	28	12	21	37	1.90
3071838--3071862	13	1.9	13	100	0	50	32	16	20	32	1.94
3071917--3071968	20	2.5	21	87	3	70	28	17	13	40	1.87
3073753--3073915	82	2.0	82	83	3	204	33	11	25	30	1.90
3074727--3074752	13	2.0	13	100	0	52	38	15	15	30	1.88
3074709--3074772	32	2.0	33	87	3	94	40	17	14	28	1.88
3080011--3080078	33	2.1	33	86	2	93	32	11	17	38	1.86
3080111--3080163	20	2.6	21	78	3	63	26	16	16	39	1.91
3080151--3080175	13	1.9	13	100	0	50	36	16	16	32	1.90
3082155--3082206	20	2.4	21	81	12	61	5	26	48	19	1.71
3082467--3082509	23	2.0	22	86	13	63	39	4	20	34	1.74
3082856--3082881	8	3.2	8	100	0	52	61	23	0	15	1.33
3088798--3088849	20	2.7	20	87	3	70	32	11	15	40	1.83
3098210--3098259	10	5.4	9	83	11	57	84	4	10	2	0.84
3098205--3098259	17	3.1	18	82	17	62	83	5	9	1	0.86
3098212--3098241	15	1.9	15	93	6	51	86	3	10	0	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3098205--3098259	24	2.3	24	87	0	74	83	5	9	1	0.86
3100410--3100440	13	2.4	13	94	0	53	38	9	16	35	1.81
3101485--3101525	16	2.6	16	88	0	55	56	12	19	12	1.67
3103738--3103804	33	2.0	33	88	0	98	34	11	13	40	1.81
3103758--3103782	13	1.9	13	100	0	50	36	16	16	32	1.90
3103848--3103872	13	1.9	13	100	0	50	32	16	16	36	1.90
3103881--3104001	52	2.3	52	94	0	215	33	19	18	28	1.95
3107247--3107286	21	1.9	21	100	0	80	25	25	20	30	1.99
3112274--3112311	17	2.2	17	90	0	58	18	34	18	28	1.95
3112291--3112487	31	6.3	31	84	8	240	23	29	18	27	1.98
3112291--3112552	94	2.8	94	87	3	348	22	29	17	30	1.97
3112311--3112519	62	3.3	62	84	8	255	24	28	17	29	1.97
3112496--3113389	34	26.9	34	76	15	808	20	33	12	33	1.90
3112405--3113190	33	23.6	34	77	13	637	20	32	13	33	1.92
3112654--3112705	27	1.9	27	96	0	95	23	38	17	21	1.93
3112490--3113389	70	13.6	66	81	12	836	20	33	12	33	1.90
3113201--3113389	35	5.4	34	86	9	247	18	33	12	34	1.89
3113397--3113488	32	2.8	32	92	7	159	29	35	19	15	1.92
3113222--3113440	105	2.1	102	83	8	264	21	35	12	30	1.91
3113397--3113489	33	2.9	32	93	6	161	29	36	19	15	1.92
3113501--3114646	49	23.5	49	85	6	1521	24	26	17	32	1.97
3113501--3114709	101	12.3	98	93	3	1791	24	26	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113993--3114646	92	6.9	92	94	3	1065	24	25	17	32	1.97
3113501--3114712	383	3.1	383	94	3	1992	24	26	17	32	1.97
3115582--3115648	33	2.0	33	88	0	98	34	11	13	40	1.81
3115602--3115626	13	1.9	13	100	0	50	36	16	16	32	1.90
3115692--3115716	13	1.9	13	100	0	50	32	16	16	36	1.90
3115725--3115845	52	2.3	52	91	0	206	33	19	19	28	1.95
3115958--3115988	13	2.4	13	94	0	53	38	9	16	35	1.81
3117033--3117073	16	2.6	16	88	0	55	56	12	19	12	1.67
3119285--3119351	33	2.0	33	88	0	98	34	11	13	40	1.81
3119305--3119329	13	1.9	13	100	0	50	36	16	16	32	1.90
3119395--3119419	13	1.9	13	100	0	50	32	16	16	36	1.90
3119428--3119548	52	2.3	52	94	0	215	33	19	18	28	1.95
3122794--3122833	21	1.9	21	100	0	80	25	25	20	30	1.99
3127818--3127855	17	2.2	17	90	0	58	18	34	18	28	1.95
3127835--3128031	31	6.3	31	84	8	240	23	29	18	27	1.98
3127835--3128096	94	2.8	94	87	3	348	22	30	17	29	1.97
3127855--3128063	62	3.3	62	84	8	255	24	28	17	29	1.97
3128040--3128936	34	27.0	34	76	15	800	20	33	12	33	1.90
3128198--3128249	27	1.9	27	96	0	95	23	38	17	21	1.93
3128034--3128931	70	13.6	66	81	12	827	20	33	12	33	1.90
3128744--3128936	35	5.5	34	84	11	239	18	33	12	35	1.88
3128744--3128933	69	2.7	70	91	6	296	18	33	12	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3128603--3128890	157	1.8	157	92	1	488	20	34	12	32	1.91
3128933--3129030	32	3.1	31	91	5	160	27	37	18	16	1.92
3128765--3128981	103	2.1	101	83	8	260	22	35	12	29	1.91
3128938--3129030	33	2.9	32	93	6	161	29	36	19	15	1.92
3129042--3130187	49	23.5	49	85	6	1521	24	26	17	32	1.97
3129042--3130249	101	12.3	98	93	3	1798	24	26	17	32	1.97
3129534--3130187	92	6.9	92	94	3	1065	24	25	17	32	1.97
3129042--3130252	383	3.1	383	94	3	1999	24	26	17	32	1.97
3130101--3130237	52	2.6	52	82	2	148	24	24	16	34	1.96
3131141--3131165	13	1.9	13	100	0	50	36	16	16	32	1.90
3131121--3131186	32	2.0	33	88	2	98	34	12	13	39	1.82
3131230--3131254	13	1.9	13	100	0	50	32	16	16	36	1.90
3131263--3131383	52	2.3	52	91	0	206	33	19	19	28	1.95
3131496--3131526	13	2.4	13	94	0	53	38	9	16	35	1.81
3134824--3134890	33	2.0	33	88	0	98	34	11	13	40	1.81
3134844--3134868	13	1.9	13	100	0	50	36	16	16	32	1.90
3134934--3134958	13	1.9	13	100	0	50	32	16	16	36	1.90
3134967--3135087	52	2.3	52	91	0	206	33	19	19	28	1.95
3135200--3135230	13	2.4	13	94	0	53	38	9	16	35	1.81
3136275--3136315	16	2.6	16	88	0	55	56	12	19	12	1.67
3138529--3138595	33	2.0	33	88	0	98	34	11	13	40	1.81
3138549--3138573	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)
3138639--3138663	13	1.9	13	100	0	50	32	16	16	36	1.90
3138672--3138792	52	2.3	52	91	0	206	33	19	19	28	1.95
3138905--3138935	13	2.4	13	94	0	53	38	9	16	35	1.81
3139979--3140019	16	2.6	16	88	0	55	56	12	19	12	1.67
3143092--3143131	16	2.6	16	88	4	55	55	12	20	12	1.69
3145344--3145410	33	2.0	33	88	0	98	34	11	13	40	1.81
3145364--3145388	13	1.9	13	100	0	50	36	16	16	32	1.90
3145454--3145478	13	1.9	13	100	0	50	32	16	16	36	1.90
3145487--3145607	52	2.3	52	94	0	215	33	19	18	28	1.95
3148851--3148890	21	1.9	21	100	0	80	25	25	20	30	1.99
3153875--3153912	17	2.2	17	90	0	58	18	34	18	28	1.95
3153892--3154088	31	6.3	31	84	8	240	23	29	18	27	1.98
3153892--3154153	94	2.8	94	87	3	348	22	30	17	29	1.97
3153912--3154120	62	3.3	62	84	8	255	24	28	17	29	1.97
3154097--3154990	34	26.9	34	76	15	817	20	33	12	33	1.90
3154006--3154791	33	23.6	34	77	13	646	20	32	13	32	1.92
3154255--3154306	27	1.9	27	96	0	95	23	38	17	21	1.93
3154091--3154990	70	13.6	66	81	12	845	20	33	12	33	1.90
3154802--3154990	35	5.4	34	86	9	247	18	33	12	34	1.89
3154998--3155089	32	2.8	32	92	7	159	29	35	19	15	1.92
3154823--3155041	105	2.1	102	83	8	264	21	35	12	30	1.91
3154998--3155090	33	2.9	32	93	6	161	29	36	19	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155102--3156247	49	23.5	49	85	6	1521	24	26	17	32	1.97
3155102--3156310	101	12.3	98	93	3	1791	24	26	17	32	1.97
3155594--3156247	92	6.9	92	94	3	1065	24	25	17	32	1.97
3155102--3156313	383	3.1	383	94	3	1992	24	26	17	32	1.97
3157183--3157249	33	2.0	33	88	0	98	34	11	13	40	1.81
3157203--3157227	13	1.9	13	100	0	50	36	16	16	32	1.90
3157293--3157317	13	1.9	13	100	0	50	32	16	16	36	1.90
3157326--3157446	52	2.3	52	91	0	206	33	19	19	28	1.95
3157559--3157589	13	2.4	13	94	0	53	38	9	16	35	1.81
3158634--3158674	16	2.6	16	88	0	55	56	12	19	12	1.67

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