genome.fa.s79.2.7.7.80.10.50.1000.22.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  22  of  26  ( 3105 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)
3063892--3063945	9	6.3	9	75	12	51	40	0	0	59	0.98
3063891--3063973	16	5.0	16	70	16	62	42	0	0	57	0.98
3063895--3063945	25	2.0	27	84	7	70	41	0	0	58	0.98
3063900--3063973	32	2.5	29	75	21	82	44	0	0	55	0.99
3063877--3063956	15	5.2	16	72	20	64	40	0	0	60	0.97
3063909--3063969	20	3.5	18	67	28	51	47	0	0	52	1.00
3069101--3069150	16	3.0	16	78	18	57	58	0	4	38	1.17
3070173--3070210	2	19.0	2	100	0	76	50	0	0	50	1.00
3070353--3070429	30	2.6	29	82	12	84	46	2	6	44	1.43
3071062--3071104	18	2.4	17	81	14	50	51	0	2	46	1.13
3073450--3073482	16	2.0	16	94	5	57	27	0	0	72	0.85
3073919--3073953	17	2.1	17	89	10	54	62	2	0	34	1.10
3074395--3074427	3	11.0	3	100	0	66	66	0	0	33	0.92
3074610--3074646	3	12.7	3	88	5	58	29	0	0	70	0.88
3081056--3081087	16	2.0	16	100	0	64	37	12	6	43	1.68
3081746--3081842	48	2.0	48	100	0	194	46	12	14	26	1.80
3090521--3090589	31	2.2	31	84	0	84	47	4	0	47	1.21
3090572--3090610	19	2.1	19	95	0	69	51	0	0	48	1.00
3091964--3091993	13	2.3	13	100	0	60	50	20	10	20	1.76
3095077--3095109	3	11.0	3	100	0	66	0	33	0	66	0.92
3095663--3095692	2	15.5	2	93	6	53	46	0	0	53	1.00
3099645--3099690	23	1.9	24	86	8	67	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3102437--3102465	3	9.7	3	100	0	58	0	31	0	68	0.89
3102841--3102885	20	2.2	20	84	7	56	64	0	0	35	0.94
3106477--3106534	28	2.1	28	100	0	116	27	10	10	51	1.68
3107274--3107318	21	2.2	21	92	7	76	37	0	2	60	1.09
3109136--3109180	2	23.0	2	90	4	74	48	2	0	48	1.13
3109222--3109246	13	1.9	13	100	0	50	56	0	0	44	0.99
3109485--3109509	5	5.0	5	100	0	50	80	0	0	20	0.72
3115050--3115095	23	2.0	22	83	4	56	56	0	0	43	0.99
3118372--3118399	3	9.3	3	100	0	56	64	0	0	35	0.94
3118699--3118752	17	3.2	17	75	15	58	46	0	0	53	1.00
3118807--3118866	7	8.3	7	74	20	52	51	0	0	48	1.00
3119404--3119445	21	2.0	21	95	0	75	19	30	4	45	1.71
3128089--3128121	2	16.5	2	100	0	66	48	0	0	51	1.00
3128246--3128348	38	2.8	36	73	15	93	44	0	0	54	1.06
3128335--3128374	17	2.3	18	91	4	64	52	0	5	42	1.23
3130188--3130231	19	2.3	19	92	0	70	27	18	20	34	1.96
3134297--3134480	34	5.4	34	84	1	228	27	7	24	41	1.80
3135240--3135269	15	1.9	15	93	6	51	60	0	0	40	0.97
3136071--3136118	23	2.1	22	84	3	60	39	4	2	54	1.32
3136090--3136235	29	4.7	31	72	18	99	41	2	0	55	1.16
3136090--3136172	31	2.7	31	77	15	84	43	1	0	55	1.07
3136182--3136243	14	4.5	15	73	22	55	38	4	1	54	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137150--3137196	16	3.0	15	72	22	51	53	0	0	46	1.00
3137150--3137199	14	3.1	16	76	18	59	54	0	0	46	1.00
3138847--3138871	5	5.0	5	100	0	50	20	0	0	80	0.72
3139450--3139566	47	2.4	49	79	9	143	52	0	0	46	1.06
3142059--3142109	20	2.5	21	84	9	70	41	0	0	58	0.98
3142005--3142119	11	10.5	11	66	16	60	41	0	0	57	1.05
3145874--3145908	2	17.5	2	100	0	70	48	0	0	51	1.00
3148925--3148970	15	3.1	15	87	0	56	10	4	34	50	1.57
3149637--3149665	2	14.5	2	100	0	58	48	0	0	51	1.00
3150193--3150270	39	2.0	39	87	0	111	30	11	15	42	1.82
3151670--3151703	2	17.0	2	100	0	68	50	0	0	50	1.00
3153760--3153796	17	2.1	17	90	5	56	48	2	0	48	1.15
3153754--3153797	22	2.0	23	81	4	54	47	2	2	47	1.27
3153884--3153973	20	4.2	20	66	27	60	62	2	1	34	1.15
3153893--3153981	12	6.9	13	68	28	57	60	2	1	35	1.16
3153866--3153996	65	2.0	65	100	0	262	60	3	1	35	1.22
3154815--3154848	3	11.3	3	100	0	68	0	32	0	67	0.91
3154847--3154874	3	9.3	3	100	0	56	32	0	0	67	0.91
3156406--3156487	36	2.2	40	82	8	100	57	0	0	42	0.98
3157181--3157251	26	2.7	26	81	12	92	28	23	15	32	1.95
3158457--3158489	2	16.5	2	100	0	66	0	48	0	51	1.00
3162195--3162222	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3164041--3164083	15	2.9	14	77	12	50	58	0	11	30	1.34
3166149--3166198	12	3.8	13	82	15	59	70	0	0	30	0.88
3166179--3166241	24	2.6	24	78	9	74	57	1	0	41	1.08
3166258--3166316	22	2.6	22	78	2	64	54	0	1	44	1.10
3166811--3166847	14	2.6	15	83	8	51	62	2	0	35	1.10
3167200--3167265	25	2.5	27	73	16	75	53	1	0	45	1.09
3170190--3170243	24	2.2	25	86	3	74	16	24	25	33	1.96
3172149--3172201	15	3.5	15	76	19	65	41	0	0	58	0.98
3172988--3173034	24	2.0	24	83	8	60	42	6	0	51	1.27
3174794--3174881	41	2.1	41	81	4	106	46	0	0	53	1.00
3177151--3177238	42	2.2	40	82	12	99	46	0	1	52	1.08
3177201--3177232	17	1.9	17	93	6	57	46	0	0	53	1.00
3178439--3178474	3	12.0	3	100	0	72	66	0	0	33	0.92
3178956--3179097	72	2.0	72	91	2	232	31	14	9	44	1.77
3186447--3186476	13	2.3	13	94	0	51	43	3	0	53	1.17
3192904--3192960	26	2.3	26	84	6	73	52	0	0	47	1.00
3192936--3192972	17	2.0	19	85	15	51	48	0	0	51	1.00
3193636--3193668	14	2.4	14	90	10	50	54	0	0	45	0.99
3194137--3194180	15	2.7	15	89	10	61	52	2	0	45	1.13
3194349--3194388	13	2.9	14	85	7	55	45	2	0	52	1.14
3197639--3197663	13	1.9	13	100	0	50	36	0	0	64	0.94
3198366--3198410	16	2.8	17	86	6	67	33	0	2	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198390--3198444	27	2.1	25	80	12	58	43	0	1	54	1.10
3209700--3209727	4	7.0	4	100	0	56	25	0	0	75	0.81
3216142--3216197	12	4.7	12	78	8	51	50	3	0	46	1.19
3222032--3222063	16	2.0	16	93	0	55	53	3	0	43	1.16
3222524--3222566	21	2.0	22	81	9	52	46	0	0	53	1.00
3222920--3222953	2	17.0	2	100	0	68	50	0	0	50	1.00
3223010--3223056	2	23.5	2	100	0	94	51	0	0	48	1.00
3223140--3223187	15	3.4	14	77	13	53	56	0	0	43	0.99
3231568--3231606	13	3.0	12	88	11	51	79	0	2	17	0.84
3231966--3231995	3	9.7	3	92	7	51	63	0	0	36	0.95
3232838--3232923	36	2.4	36	81	14	106	51	2	0	46	1.13
3233909--3233947	13	2.9	14	77	14	55	38	0	0	61	0.96
3234669--3234737	32	2.2	31	84	2	93	26	14	4	55	1.58
3234669--3234729	32	1.9	32	89	0	95	29	13	4	52	1.61
3235451--3235488	14	2.5	15	87	8	51	34	0	0	65	0.93
3239373--3239400	2	14.0	2	100	0	56	0	50	0	50	1.00
3240831--3240896	29	2.2	32	84	10	86	42	0	1	56	1.08
3246638--3246878	94	2.5	94	86	1	320	37	22	21	18	1.94
3246817--3247024	74	2.7	76	76	14	239	32	23	23	21	1.98
3248635--3248668	17	2.0	17	94	0	59	50	0	0	50	1.00
3248621--3248665	2	23.0	2	81	4	56	51	2	0	46	1.13
3251341--3251393	27	2.0	27	85	7	74	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3251341--3251399	27	2.1	27	84	6	73	57	1	0	40	1.09
3252051--3252078	6	4.7	6	100	0	56	71	0	0	28	0.86
3253701--3253826	62	2.0	62	87	1	182	45	6	10	38	1.64
3253931--3253973	10	4.1	10	82	8	50	81	0	13	4	0.84
3260528--3260575	20	2.4	20	75	0	51	54	0	0	45	0.99
3265329--3265358	6	5.0	6	91	0	51	13	33	33	20	1.91
3265695--3265734	20	2.0	20	85	0	53	62	0	5	32	1.17
3265734--3265821	40	2.2	40	87	8	124	57	1	1	39	1.13
3265855--3265888	12	3.1	11	88	12	52	61	0	0	38	0.96
3268559--3268590	2	16.0	2	100	0	64	0	0	50	50	1.00

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