genome.fa.s4079.2.7.7.80.10.50.1000.8.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1218 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)
3066711--3066752	14	3.0	14	79	6	50	76	4	2	16	1.07
3067683--3067707	11	2.3	11	100	0	50	52	8	0	40	1.31
3068822--3068900	40	2.0	39	95	2	140	50	15	15	18	1.78
3068839--3068905	21	3.3	21	61	23	52	49	16	14	19	1.80
3070450--3070512	2	33.0	2	76	9	51	44	3	3	49	1.34
3071724--3071776	21	2.5	22	73	17	58	52	0	7	39	1.30
3072274--3072318	23	2.0	22	82	4	54	40	4	17	37	1.70
3072522--3072566	23	2.0	23	81	0	54	22	0	15	62	1.33
3077329--3077390	6	10.2	6	77	10	54	75	0	22	1	0.88
3077327--3077390	23	2.7	24	83	11	78	75	0	23	1	0.90
3077347--3077390	19	2.3	19	88	0	61	77	0	22	0	0.77
3078844--3079365	260	2.0	260	89	0	803	27	20	25	26	1.99
3079387--3079713	44	7.5	44	71	10	199	29	20	22	28	1.98
3079519--3079636	45	2.7	44	77	16	118	27	18	26	27	1.98
3079944--3080169	44	5.1	44	91	1	346	26	15	26	31	1.96
3079959--3080230	132	2.1	132	78	2	278	27	17	24	30	1.97
3080256--3080356	44	2.3	44	91	0	157	31	13	26	27	1.94
3081132--3081187	21	2.8	19	89	10	94	37	10	16	35	1.83
3081166--3081210	23	2.0	22	82	4	54	40	4	17	37	1.70
3081410--3081454	23	2.0	23	81	0	54	22	0	15	62	1.33
3083246--3083415	35	4.9	35	88	0	250	37	15	24	22	1.93
3087103--3087141	4	9.5	4	83	5	51	25	5	2	66	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3087094--3087141	12	4.0	12	84	7	62	25	6	2	66	1.26
3098028--3098106	35	2.2	36	86	6	117	45	10	17	26	1.80
3101617--3101716	13	7.6	13	72	8	62	43	1	20	36	1.59
3109770--3109883	40	2.9	40	82	7	144	30	17	26	25	1.97
3109770--3109891	39	3.1	40	79	10	135	31	17	26	24	1.97
3109940--3110213	41	6.7	41	86	3	372	19	17	34	29	1.94
3120375--3120408	14	2.4	14	90	0	59	20	5	50	23	1.70
3120506--3120569	33	1.9	33	87	6	94	17	3	42	37	1.65
3120564--3120606	21	2.0	22	86	4	61	30	0	32	37	1.58
3120856--3120910	14	3.9	15	85	7	62	29	0	30	40	1.57
3120911--3120960	21	2.3	22	82	6	66	28	0	42	30	1.56
3124613--3124956	43	8.3	43	83	8	392	20	17	31	30	1.95
3124717--3124948	75	2.9	79	87	7	310	19	17	33	29	1.95
3124682--3124904	118	1.9	118	93	0	383	20	17	31	30	1.96
3124656--3124947	161	1.8	161	89	1	460	20	17	32	29	1.95
3133350--3133710	122	2.9	122	75	8	354	31	18	22	27	1.97
3133765--3133895	41	3.2	41	80	3	138	17	19	27	35	1.95
3134112--3134320	103	2.0	104	99	0	411	42	3	13	40	1.62
3135086--3135673	269	2.2	270	86	1	797	34	14	18	32	1.92
3135440--3135906	233	2.0	232	87	3	663	35	14	19	30	1.91
3136638--3136757	60	2.0	60	91	3	197	25	9	24	40	1.84
3136802--3136842	13	3.2	13	83	13	57	34	4	9	51	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137143--3137195	23	2.3	23	75	15	56	9	22	13	54	1.67
3138377--3138639	9	30.2	9	65	18	103	42	20	2	33	1.66
3138377--3138437	25	2.4	25	74	15	63	47	21	3	27	1.66
3138381--3138478	41	2.4	41	86	3	126	45	21	3	29	1.67
3138447--3138680	16	14.4	16	65	17	90	42	20	2	35	1.64
3138588--3138680	34	2.7	34	81	6	98	45	20	2	32	1.63
3138566--3138667	52	2.0	50	81	11	116	41	21	2	34	1.68
3144071--3144120	21	2.4	21	82	0	64	36	14	44	6	1.69
3144483--3144775	43	6.9	43	77	6	251	29	20	24	26	1.99
3144489--3144771	84	3.3	84	77	6	207	28	20	24	25	1.99
3152876--3153019	75	1.9	75	88	2	218	41	15	25	16	1.88
3155693--3155774	43	1.9	42	90	2	128	24	14	25	35	1.94
3161824--3161884	20	3.0	21	66	9	63	16	29	18	36	1.92
3161762--3161884	40	3.1	40	87	0	183	16	29	18	35	1.93
3161762--3161917	80	2.0	80	80	5	181	16	25	18	39	1.92
3168291--3168327	16	2.3	16	100	0	74	45	16	21	16	1.84
3179206--3179498	84	3.5	84	84	1	338	43	11	11	33	1.77
3179549--3179944	88	4.7	87	73	14	274	42	10	13	33	1.78
3179364--3180006	176	3.7	170	74	14	475	42	10	13	33	1.79
3180006--3180038	17	1.9	17	88	11	50	36	0	3	60	1.12
3180972--3181008	9	4.1	9	89	0	56	48	13	8	29	1.71
3181221--3181280	30	2.0	31	86	3	86	20	40	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3186237--3186263	14	1.9	14	100	0	54	29	3	0	66	1.09
3186166--3186544	91	4.2	91	100	0	758	25	3	5	65	1.28
3186328--3186354	14	1.9	14	100	0	54	29	3	0	66	1.09
3186419--3186445	14	1.9	14	100	0	54	29	3	0	66	1.09
3186510--3186536	14	1.9	14	100	0	54	29	3	0	66	1.09
3186579--3186619	20	2.0	21	85	4	57	43	4	2	48	1.37
3192515--3192981	239	2.0	239	87	2	679	38	17	15	28	1.91
3197711--3197748	16	2.2	18	90	9	62	39	5	5	50	1.48
3208450--3208492	20	2.2	20	86	0	59	55	2	20	20	1.54
3220225--3220265	21	2.0	21	85	0	55	7	24	2	65	1.30
3221031--3221103	37	2.0	37	81	7	87	56	23	5	15	1.60
3229729--3229827	17	5.8	17	65	15	60	42	3	4	50	1.36
3247841--3247883	3	14.7	3	95	4	79	34	0	32	32	1.58
3250120--3250151	16	2.0	16	93	0	55	25	15	0	59	1.36
3256214--3256245	16	2.0	16	93	0	55	25	15	0	59	1.36
3256473--3256663	51	3.8	52	81	7	241	29	27	18	25	1.98
3256473--3256655	101	1.8	102	89	3	289	29	26	19	25	1.98
3259625--3259669	22	2.0	22	100	0	90	20	13	4	62	1.48
3264877--3264975	39	2.5	39	80	0	108	28	7	22	42	1.79
3276645--3276804	84	1.9	84	89	0	248	45	10	13	31	1.76
3276848--3277124	77	3.4	78	80	9	283	36	12	18	32	1.88
3279119--3279189	31	2.3	31	85	11	92	26	12	8	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279959--3279996	17	2.3	17	86	4	51	55	2	13	28	1.51
3291918--3291964	17	2.7	18	75	15	53	55	23	2	19	1.54
3292045--3292096	25	2.0	25	85	10	70	53	28	1	15	1.52
3296521--3296580	25	2.4	25	91	0	102	41	20	10	28	1.84
3297625--3297724	50	2.0	50	100	0	200	26	24	12	38	1.90
3298906--3298973	27	2.5	27	82	0	91	33	20	27	17	1.95
3300298--3300349	24	2.4	21	78	15	54	48	1	3	46	1.31
3300363--3300414	20	2.8	18	76	21	54	51	5	1	40	1.37
3303735--3303777	21	2.0	21	90	0	68	37	11	13	37	1.82
3305721--3305784	31	2.1	31	96	0	119	29	18	0	51	1.47
3305810--3305858	19	2.6	19	100	0	98	61	12	0	26	1.31
3309723--3309755	16	2.1	16	94	0	57	21	33	6	39	1.78
3318158--3318187	9	3.3	9	90	0	51	40	0	3	56	1.16
3321278--3321329	27	1.9	27	88	0	77	34	13	34	17	1.89
3327801--3327954	50	3.1	50	88	0	227	27	9	20	41	1.84
3334751--3334818	33	2.1	33	100	0	136	35	14	11	38	1.83
3335408--3335439	7	4.6	7	100	0	64	75	0	0	25	0.81
3336595--3336671	36	2.2	36	81	4	95	23	24	22	29	1.99
3336715--3336845	40	3.4	39	71	12	101	24	19	19	37	1.94
3336651--3336932	75	3.8	75	81	3	282	22	20	22	34	1.97
3345964--3346112	54	2.8	54	80	6	176	24	18	32	24	1.97
3346632--3346683	20	2.6	20	93	0	86	26	15	5	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3349274--3349317	21	2.1	21	100	0	88	27	18	13	40	1.88
3349789--3349841	20	2.7	19	88	8	79	43	16	11	28	1.83
3350190--3350250	32	1.9	32	93	3	106	37	18	3	40	1.67
3358961--3359390	212	2.0	212	97	0	815	34	18	16	31	1.92
3361292--3361316	12	2.1	12	100	0	50	56	0	8	36	1.29
3367965--3368002	14	2.7	14	92	8	60	36	2	18	42	1.64
3367985--3368023	20	2.0	19	95	5	69	35	2	15	46	1.60
3367972--3368035	34	1.9	32	81	12	76	37	4	14	43	1.66
3368025--3368101	33	2.4	34	80	12	90	32	6	12	48	1.67
3374081--3374173	21	4.5	21	82	2	109	45	19	19	16	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11