genome.fa.s15.2.7.7.80.10.50.1000.20.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: 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  20  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)
3160887--3160953	33	2.0	33	88	0	98	34	11	13	40	1.81
3160907--3160931	13	1.9	13	100	0	50	36	16	16	32	1.90
3160997--3161021	13	1.9	13	100	0	50	32	16	16	36	1.90
3161030--3161150	52	2.3	52	94	0	215	33	19	18	28	1.95
3167856--3167902	21	2.2	21	88	0	67	25	19	0	55	1.43
3169479--3169523	23	1.9	24	82	13	58	42	20	6	31	1.77
3169922--3169992	20	3.7	18	81	14	72	36	16	16	29	1.92
3170583--3171188	48	12.7	47	79	5	459	20	17	17	43	1.88
3170583--3171173	239	2.5	238	80	4	654	20	17	17	43	1.88
3170582--3171196	144	4.3	142	77	8	534	20	18	17	43	1.88
3171423--3171731	169	1.8	170	90	0	494	19	24	14	41	1.89
3175910--3176025	51	2.3	51	86	0	151	29	12	26	31	1.92
3175869--3176104	130	1.8	131	82	9	313	33	13	25	27	1.93
3175962--3176136	80	2.2	80	86	1	244	31	14	25	28	1.95
3176041--3176382	51	6.6	51	72	13	241	32	11	26	30	1.91
3176090--3176160	27	2.6	28	86	8	101	22	18	32	26	1.97
3176143--3176381	51	4.6	51	82	8	261	32	10	26	30	1.89
3176143--3176381	102	2.3	104	86	2	349	32	10	26	30	1.89
3178783--3178834	21	2.6	21	90	6	81	32	15	13	38	1.86
3179125--3179162	12	3.2	12	79	20	53	81	0	0	18	0.69
3186010--3186035	13	2.0	13	100	0	52	30	15	15	38	1.88
3189898--3190033	52	2.6	52	90	4	213	27	14	15	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196298--3196358	29	2.1	29	84	0	77	26	11	9	52	1.68
3196468--3196558	29	3.1	28	70	17	69	27	12	13	47	1.78
3196465--3196589	58	2.2	58	86	0	169	28	14	13	44	1.83
3196486--3196676	58	3.3	58	77	7	165	26	14	13	45	1.82
3196859--3197047	76	2.5	75	80	5	211	32	11	19	36	1.88
3199177--3199212	18	2.0	18	100	0	72	38	22	16	22	1.93
3200872--3201158	91	3.2	90	87	4	308	28	22	12	36	1.91
3202342--3202381	21	1.9	21	85	10	55	20	12	5	62	1.48
3203393--3203430	20	1.9	20	88	0	58	36	18	13	31	1.89
3206043--3206103	32	1.9	32	86	6	88	31	11	13	44	1.79
3210939--3210963	13	1.9	13	100	0	50	36	16	16	32	1.90
3211002--3211091	13	6.0	13	69	26	54	34	17	13	34	1.89
3211016--3211113	19	5.8	18	69	28	81	36	18	11	33	1.86
3211003--3211111	32	3.4	32	93	1	182	34	18	12	33	1.89
3213990--3214016	13	2.1	13	100	0	54	29	14	14	40	1.86
3213971--3214035	33	2.0	32	88	8	96	29	13	16	40	1.88
3213997--3214057	20	3.1	20	83	9	81	36	14	18	31	1.91
3214002--3214057	19	2.9	19	84	5	76	35	14	17	32	1.90
3233222--3233345	52	2.4	51	94	1	212	28	18	18	34	1.95
3233354--3233378	13	1.9	13	100	0	50	36	16	16	32	1.90
3233419--3233485	33	2.0	33	88	0	98	40	13	11	34	1.81
3233441--3233465	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3234463--3234892	28	14.9	28	86	6	520	21	18	32	27	1.97
3234570--3234641	36	2.0	36	100	0	144	25	16	33	25	1.96
3236124--3236177	9	5.9	9	82	8	65	1	1	11	85	0.76
3236124--3236179	26	2.2	25	90	6	94	1	1	10	85	0.74
3236139--3236182	21	2.0	22	87	12	65	2	0	13	84	0.73
3240557--3240630	19	3.7	19	85	8	87	28	16	18	36	1.93
3240660--3240712	20	2.7	19	88	11	72	37	13	18	30	1.89
3246641--3246692	19	2.9	19	81	16	58	25	0	21	53	1.45
3248647--3248681	18	1.9	18	88	0	52	57	0	31	11	1.34
3249272--3249298	13	2.1	13	100	0	54	29	14	14	40	1.86
3249253--3249317	33	2.0	32	93	3	112	26	15	16	41	1.88
3249282--3249339	19	2.9	19	87	5	80	32	15	17	34	1.91
3264385--3264428	23	1.9	23	95	0	79	38	15	18	27	1.91
3266000--3266033	15	2.3	15	89	0	50	32	14	2	50	1.58
3267922--3267946	2	12.5	2	100	0	50	48	0	0	52	1.00
3269246--3269321	37	2.1	37	97	0	143	32	11	18	36	1.87
3270268--3270306	19	2.0	20	90	5	62	48	5	2	43	1.38
3276368--3276403	18	1.9	19	94	5	65	41	0	2	55	1.14
3278790--3278862	20	3.7	20	92	7	114	30	19	13	36	1.90
3278892--3278946	19	2.8	19	88	5	74	32	18	14	34	1.91
3279466--3279534	19	3.7	19	74	12	72	33	31	1	33	1.67
3279467--3279543	37	2.1	37	95	0	136	32	31	2	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279539--3279578	19	2.2	19	90	4	64	12	30	0	57	1.36
3285944--3285973	9	3.3	9	95	0	51	30	43	3	23	1.70
3286178--3286234	21	2.7	21	97	0	105	33	10	19	36	1.86
3286290--3286354	19	3.7	19	76	23	88	32	12	15	40	1.84
3286311--3286367	13	3.9	13	76	24	60	35	14	15	35	1.88
3286292--3286370	32	2.5	32	100	0	158	35	12	15	36	1.85
3286410--3286435	13	2.0	13	100	0	52	30	15	15	38	1.88
3288928--3289099	52	3.3	51	77	9	168	29	25	12	33	1.92
3291699--3291765	33	2.0	33	86	11	93	32	16	13	37	1.88
3291794--3291849	19	2.8	21	83	10	80	33	17	14	33	1.90
3292455--3292507	26	2.0	26	85	0	70	43	7	11	37	1.69
3292828--3292956	41	3.1	41	98	1	249	34	0	17	47	1.48
3296655--3296702	10	4.8	10	76	7	53	54	0	0	45	0.99
3298293--3298317	1	25.0	1	100	0	50	0	100	0	0	0.00
3298952--3298989	2	19.0	2	100	0	76	50	0	0	50	1.00
3299858--3299887	9	3.2	9	90	9	51	63	0	0	36	0.95
3299859--3299888	5	6.2	5	92	7	53	60	0	0	40	0.97
3314088--3314190	1	103.0	1	72	0	53	83	10	5	0	0.80
3314089--3314191	29	3.6	29	82	8	113	82	10	6	0	0.84
3314088--3314190	13	7.8	12	73	19	73	83	10	5	0	0.80
3314088--3314187	41	2.4	40	93	3	164	83	11	6	0	0.82
3315433--3315868	28	15.5	28	81	8	433	30	29	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3316645--3316802	20	7.8	20	73	5	120	34	17	10	38	1.83
3316637--3316793	41	3.9	41	83	2	174	33	18	10	37	1.86
3322004--3322061	20	2.8	20	89	2	89	32	8	12	46	1.71
3322096--3322147	19	2.7	20	87	6	79	28	13	15	42	1.85
3322177--3322250	20	3.7	20	78	8	69	31	17	13	37	1.89
3322201--3322253	20	2.7	20	88	5	72	30	15	15	39	1.87
3324223--3324265	20	2.1	20	82	4	50	9	27	44	18	1.80
3330866--3330917	19	2.7	20	87	6	79	28	13	15	42	1.85
3331960--3331989	2	15.0	2	92	0	51	53	0	0	46	1.00
3332027--3332070	18	2.4	18	84	0	52	52	4	4	38	1.42
3333008--3333045	18	2.2	18	90	4	60	15	0	0	84	0.63
3333012--3333048	11	3.3	11	88	3	56	13	0	0	86	0.57
3333251--3333343	27	3.4	27	84	0	123	29	20	23	26	1.99
3333248--3333343	14	7.1	14	69	5	63	28	20	22	28	1.99
3333267--3333343	13	5.8	13	71	6	55	29	20	23	25	1.99
3333278--3333380	40	2.5	40	81	7	111	27	19	26	27	1.99
3333410--3333456	15	3.1	15	84	0	67	23	19	21	36	1.95
3334655--3334690	16	2.2	16	100	0	72	44	5	5	44	1.50
3335190--3335236	16	2.9	16	83	0	58	36	34	19	10	1.86
3335248--3335294	16	2.9	16	80	0	67	38	31	23	6	1.80
3336719--3336748	16	1.9	16	93	6	53	53	16	10	20	1.71
3339657--3339707	16	3.1	16	91	2	75	60	1	0	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3339673--3339733	26	2.3	27	86	8	81	59	1	0	39	1.08
3342905--3342942	20	1.9	20	84	10	51	47	0	13	39	1.42
3343705--3343730	13	2.0	13	100	0	52	38	15	15	30	1.88
3343687--3343751	32	2.0	32	87	6	94	43	15	13	27	1.85
3346375--3346466	42	2.1	43	84	4	114	38	17	10	33	1.85
3349900--3349925	13	2.0	13	100	0	52	30	15	15	38	1.88
3352278--3352324	21	2.3	21	76	23	55	42	4	19	34	1.70
3352445--3352483	13	3.0	13	96	0	69	35	15	17	30	1.91
3352469--3352507	20	2.0	20	94	0	69	51	10	15	23	1.73
3352551--3352576	13	2.0	13	100	0	52	30	38	7	23	1.83

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