genome.fa.s51.2.7.7.80.10.50.1000.19.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: Scaffold51
Parameters: 2 7 7 80 10 50 1000
Length:  3712191

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2647 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)
3081437--3081480	21	2.1	21	91	0	70	22	36	13	27	1.92
3083043--3083327	141	2.0	141	97	0	543	24	22	18	34	1.96
3084856--3084958	29	3.6	28	73	10	75	33	1	26	37	1.68
3084997--3085355	156	2.3	155	82	1	423	26	11	35	25	1.91
3084997--3085357	78	4.6	78	74	3	305	26	11	36	25	1.91
3090592--3090877	79	3.6	78	83	3	358	27	25	12	34	1.92
3090810--3090927	51	2.3	50	85	8	150	30	27	11	30	1.91
3090868--3091161	79	3.7	79	81	2	324	30	24	11	33	1.91
3090734--3091008	129	2.1	130	84	8	348	27	26	12	33	1.93
3090664--3091069	208	1.9	209	83	6	529	28	25	11	34	1.91
3090590--3091215	287	2.2	288	81	7	700	28	24	11	34	1.91
3090868--3091157	158	1.8	157	83	5	388	30	24	11	33	1.91
3091101--3091235	51	2.6	51	86	4	166	31	24	6	37	1.81
3097416--3099546	60	35.3	61	79	6	1830	25	21	19	33	1.97
3097416--3099546	122	17.7	122	80	6	1870	25	21	19	33	1.97
3100507--3100531	13	1.9	13	100	0	50	40	0	16	44	1.47
3100488--3100561	34	2.2	34	80	4	87	41	9	13	35	1.77
3100506--3100586	34	2.4	34	85	0	99	41	7	13	37	1.73
3100636--3100690	20	2.6	21	85	5	76	30	9	12	47	1.73
3103098--3103778	79	8.6	79	77	5	488	29	23	12	34	1.92
3103098--3103774	237	2.9	237	79	4	607	29	23	12	34	1.92
3103711--3103847	51	2.7	51	96	2	249	28	25	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3105662--3105788	31	4.0	31	78	9	112	30	22	12	33	1.92
3110643--3110718	21	3.7	21	80	3	100	28	17	11	42	1.84
3110664--3110736	20	3.6	20	81	3	101	31	19	13	35	1.91
3110643--3110736	41	2.3	41	98	0	179	29	18	12	39	1.88
3113180--3113218	13	3.0	13	96	0	69	35	15	17	30	1.91
3113204--3113242	20	2.0	20	94	0	69	51	10	15	23	1.73
3115296--3115326	15	2.1	15	93	0	53	12	22	16	48	1.80
3117130--3117174	21	2.1	21	84	8	56	22	20	4	53	1.63
3119386--3119411	13	2.0	13	100	0	52	30	15	15	38	1.88
3119450--3119525	21	3.7	21	80	3	100	28	17	11	42	1.84
3119471--3119543	20	3.6	20	81	3	92	32	19	12	35	1.89
3119450--3119543	41	2.3	41	96	0	170	30	18	11	39	1.86
3120087--3120138	21	2.4	21	80	3	59	17	23	1	57	1.49
3121737--3121896	31	4.9	33	83	10	172	31	24	12	31	1.92
3125414--3125467	20	2.7	20	88	2	72	35	16	9	38	1.81
3128708--3128751	23	1.9	23	95	0	79	31	11	9	47	1.71
3131399--3131434	14	2.5	14	95	4	63	0	0	8	91	0.41
3132128--3132655	265	2.0	261	91	3	846	25	17	20	36	1.94
3134281--3134324	22	2.0	22	100	0	88	27	13	9	50	1.72
3135197--3135230	2	17.0	2	100	0	68	50	0	0	50	1.00
3143768--3143831	23	2.8	23	81	6	60	53	18	0	28	1.45
3144666--3144703	19	2.1	19	90	5	60	42	10	18	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3146411--3146464	19	2.8	19	85	2	63	33	1	0	64	1.04
3148229--3148257	14	2.0	15	93	6	51	51	0	0	48	1.00
3149131--3149168	16	2.4	16	82	4	51	57	0	2	39	1.12
3149118--3149197	19	4.2	19	73	10	65	65	1	1	32	1.09
3149064--3149199	18	6.8	19	69	23	75	62	2	0	34	1.13
3149261--3149310	24	2.0	25	88	7	75	0	22	0	78	0.76
3152891--3152936	12	3.8	12	85	5	65	47	0	4	47	1.21
3153315--3153348	6	5.7	6	100	0	68	32	0	50	17	1.47
3153469--3153513	17	2.6	17	85	0	54	53	0	2	44	1.13
3153750--3153795	13	3.4	13	85	11	65	65	0	0	34	0.93
3153938--3153999	23	2.9	23	75	20	62	56	0	4	38	1.21
3154075--3154125	14	3.7	14	81	5	68	43	0	0	56	0.99
3154110--3154171	34	1.9	31	83	9	79	33	4	8	53	1.52
3154146--3154191	20	2.2	22	84	7	60	39	4	8	47	1.54
3154386--3154414	14	2.0	15	93	6	51	62	3	0	34	1.12
3155730--3155830	17	6.0	16	69	17	71	46	0	0	52	1.07
3155737--3155785	19	2.6	19	93	3	82	40	0	0	59	0.98
3155744--3155791	19	2.8	17	85	14	71	37	0	0	62	0.95
3156734--3156951	19	11.7	19	67	7	97	32	9	18	39	1.82
3156734--3156832	38	2.6	38	80	4	110	35	10	15	39	1.81
3156759--3156833	38	2.0	38	89	5	116	37	9	16	37	1.80
3156774--3156951	38	4.8	38	74	5	121	31	8	20	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3157055--3157108	19	2.8	20	74	5	56	24	7	22	46	1.77
3157182--3157229	22	2.2	22	85	7	62	31	4	4	60	1.35
3157193--3157236	22	2.0	22	90	0	70	29	6	2	61	1.34
3157586--3157612	2	13.5	2	100	0	54	51	0	0	48	1.00
3158178--3158236	23	2.4	23	83	8	64	52	0	0	47	1.00
3160125--3160181	17	3.3	18	80	11	66	33	0	0	66	0.92
3165279--3165312	17	1.9	18	94	5	61	32	0	0	67	0.91
3168451--3168503	24	2.2	24	86	6	72	45	1	1	50	1.23
3169150--3169191	22	1.9	22	85	9	59	61	2	0	35	1.09
3171230--3171273	20	2.1	21	88	12	65	72	0	0	27	0.85
3172442--3172481	17	2.3	18	83	16	57	42	0	0	57	0.98
3172996--3173053	15	4.2	13	81	14	71	32	0	3	63	1.11
3172996--3173049	28	1.9	28	85	14	76	33	0	3	62	1.12
3173113--3173158	17	2.9	16	87	6	67	69	0	0	30	0.89
3173349--3173388	20	2.1	19	86	13	55	65	0	0	35	0.93
3173461--3173489	2	15.0	2	92	7	51	48	0	0	51	1.00
3185622--3185712	38	2.4	37	74	3	92	40	15	17	26	1.89
3187593--3187624	16	1.9	17	93	6	57	43	3	3	50	1.33
3187746--3187788	20	2.0	22	86	13	63	2	16	2	79	0.95
3189610--3189648	20	1.9	21	94	5	71	25	2	17	53	1.56
3195677--3195805	52	2.5	52	97	0	249	28	19	17	34	1.95
3195881--3195965	19	4.7	19	79	18	101	37	17	11	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3195919--3195943	13	1.9	13	100	0	50	32	16	16	36	1.90
3195900--3195963	32	2.0	33	96	3	121	34	18	12	34	1.89
3196647--3196973	43	7.2	44	78	12	329	29	18	27	25	1.98
3196535--3197263	49	15.1	49	80	10	767	31	17	25	24	1.97
3196601--3197264	92	7.0	92	87	6	923	31	17	25	24	1.97
3196535--3197264	199	3.8	187	86	7	964	31	17	25	24	1.97
3196978--3197264	94	3.1	92	90	6	441	32	18	24	24	1.97
3197269--3197647	32	11.9	31	87	4	474	18	18	33	28	1.95
3197269--3197644	97	3.9	96	87	6	514	18	19	33	28	1.95
3197822--3197915	28	3.1	28	71	21	91	31	11	34	22	1.90
3197655--3198148	34	14.9	34	75	12	426	35	11	31	20	1.89
3197689--3198219	162	3.3	156	77	12	524	34	12	32	20	1.90
3197668--3198219	68	8.5	65	75	15	407	34	12	32	20	1.90
3197959--3198010	27	1.9	27	88	0	77	30	15	30	23	1.95
3197756--3198113	128	2.8	128	83	7	431	35	12	31	20	1.90
3197979--3198147	35	4.9	34	78	7	164	39	11	28	20	1.87
3198114--3198198	29	3.0	29	81	11	113	30	14	32	22	1.93
3198171--3198240	34	2.0	36	86	5	99	38	12	30	18	1.88
3199012--3199037	13	2.0	13	100	0	52	38	15	15	30	1.88
3198994--3199057	32	2.0	33	87	3	94	40	17	14	28	1.88
3201252--3201296	21	2.1	21	84	8	56	53	4	20	22	1.63
3203099--3203129	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3205207--3205232	13	2.0	13	100	0	52	30	15	15	38	1.88
3207764--3207826	19	3.6	19	76	24	84	36	19	15	28	1.92
3207782--3207839	13	4.0	13	76	23	62	37	17	15	29	1.90
3207764--3207859	32	3.0	32	93	1	156	39	17	14	28	1.89
3209154--3209216	26	2.5	26	80	12	69	0	11	7	80	0.89
3209168--3209217	16	3.2	16	78	16	61	0	10	10	80	0.92
3209480--3209512	16	2.1	16	88	5	50	3	9	6	81	0.95
3214682--3214777	21	5.2	21	61	31	67	45	5	30	18	1.71
3214682--3214851	35	4.9	35	95	0	306	45	5	31	18	1.71
3216065--3216569	79	6.4	79	89	0	733	26	24	14	34	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23