genome.fa.s167.2.7.7.80.10.50.1000.19.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: Scaffold167
Parameters: 2 7 7 80 10 50 1000
Length:  4199719

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

This is table  19  of  22  ( 2633 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)
3163560--3163612	15	3.2	16	81	7	54	41	0	0	58	0.98
3163576--3163632	26	2.1	27	81	12	73	47	0	0	52	1.00
3163670--3163729	14	3.9	15	77	20	54	65	0	0	35	0.93
3163761--3163785	10	2.5	10	100	0	50	72	0	0	28	0.86
3163748--3163815	35	1.9	35	82	11	86	55	0	0	44	0.99
3163835--3163872	17	2.2	18	85	4	51	44	5	0	50	1.24
3165170--3165211	3	14.0	3	80	9	50	38	0	59	2	1.10
3171357--3171386	15	2.0	15	93	0	51	56	0	36	6	1.26
3171874--3171976	40	2.6	40	93	3	172	27	27	25	20	1.99
3173416--3173533	30	3.9	30	95	0	200	22	9	29	38	1.86
3180036--3180140	56	1.9	55	84	2	138	27	10	23	38	1.88
3180266--3180290	13	1.9	13	100	0	50	76	0	0	24	0.80
3186033--3186070	18	2.2	18	85	4	51	13	26	5	55	1.59
3187858--3187906	12	4.1	12	86	0	71	2	20	0	77	0.87
3187858--3187906	18	2.7	18	87	0	71	2	20	0	77	0.87
3192514--3192564	21	2.5	21	87	6	70	62	0	0	37	0.95
3199219--3199267	2	24.5	2	100	0	98	48	0	0	51	1.00
3199286--3199371	45	1.9	45	80	4	102	47	0	0	52	1.00
3199408--3199472	23	2.8	24	79	11	73	40	0	0	60	0.97
3199411--3199477	24	2.9	24	77	18	70	40	0	0	59	0.97
3199806--3199859	16	3.4	15	80	10	63	55	5	7	31	1.51
3200220--3200263	13	3.4	13	87	0	61	77	2	0	20	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3200221--3200261	21	2.0	21	85	9	57	78	2	0	19	0.87
3200331--3200355	10	2.5	10	100	0	50	60	0	8	32	1.26
3200315--3200352	15	2.4	16	82	4	51	55	2	13	28	1.51
3201109--3201156	23	2.0	23	84	11	62	41	0	2	56	1.11
3201306--3201342	18	2.1	17	90	5	56	48	0	0	51	1.00
3201634--3201674	14	2.9	14	81	3	55	39	0	0	60	0.96
3201671--3201718	18	2.7	17	84	12	53	70	0	0	29	0.87
3201677--3201766	22	4.0	23	70	20	64	62	0	0	37	0.96
3201690--3201731	21	2.0	21	86	9	59	64	0	0	35	0.94
3201783--3201845	23	2.7	23	85	11	76	49	0	1	49	1.10
3201801--3201859	24	2.5	23	78	13	57	54	0	0	45	0.99
3202552--3202601	2	25.0	2	100	0	100	50	0	50	0	1.00
3202980--3203022	22	2.0	22	95	0	77	60	0	2	37	1.10
3203078--3203129	16	3.2	15	76	15	50	57	1	0	40	1.10
3203077--3203133	18	2.9	18	80	15	53	57	1	0	40	1.09
3204306--3204767	252	1.8	249	87	2	683	30	22	24	23	1.99
3209468--3209511	12	3.6	12	80	17	54	56	0	2	40	1.11
3209588--3209623	16	2.4	14	83	16	54	41	8	5	44	1.58
3209591--3209621	16	1.9	16	100	0	62	45	9	6	38	1.63
3209977--3210015	2	19.5	2	94	0	69	0	51	0	48	1.00
3210860--3210899	20	2.0	20	100	0	80	55	15	10	20	1.68
3212033--3212067	2	17.5	2	100	0	70	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3213882--3213910	5	5.8	5	100	0	58	0	17	0	82	0.66
3214334--3214361	14	2.0	14	100	0	56	35	7	21	35	1.81
3219951--3219981	14	2.3	13	94	5	53	0	9	0	90	0.46
3220926--3220972	19	2.5	19	80	10	60	19	2	6	72	1.17
3221352--3221377	2	13.0	2	100	0	52	50	0	0	50	1.00
3221593--3221626	6	5.7	6	100	0	68	67	0	0	32	0.91
3221765--3221811	24	2.0	24	83	4	60	46	0	4	48	1.21
3228615--3228642	14	2.0	14	100	0	56	0	14	0	85	0.59
3230599--3230642	21	2.2	20	83	4	52	65	0	0	34	0.93
3230611--3230648	10	3.9	10	82	6	51	55	0	0	44	0.99
3230806--3230848	15	2.8	15	85	3	59	53	0	0	46	1.00
3232760--3232829	14	5.0	14	74	20	58	38	1	0	60	1.06
3232765--3232831	13	4.8	14	72	18	59	38	1	0	59	1.06
3232725--3232830	18	5.9	18	72	12	76	42	0	1	54	1.17
3233670--3233714	19	2.4	19	76	0	54	57	8	0	33	1.30
3235134--3235180	19	2.5	20	80	13	55	68	6	0	25	1.13
3235134--3235193	19	3.2	19	73	20	54	63	6	0	30	1.20
3235859--3235921	18	3.6	18	76	10	67	38	1	0	60	1.07
3235862--3235915	17	3.2	17	74	10	56	35	1	0	62	1.06
3245012--3245041	2	15.0	2	100	0	60	50	0	0	50	1.00
3245642--3245671	2	15.0	2	100	0	60	50	0	0	50	1.00
3245777--3245825	24	2.0	24	88	0	71	18	14	6	61	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3246385--3246413	2	14.5	2	100	0	58	51	0	0	48	1.00
3253425--3253450	11	2.4	11	100	0	52	38	7	23	30	1.83
3265994--3266033	6	6.5	6	97	2	71	30	0	70	0	0.88
3266327--3266369	23	1.9	22	85	4	59	20	2	0	76	0.89
3273173--3273208	2	18.0	2	100	0	72	0	50	0	50	1.00
3273449--3273505	25	2.1	28	90	9	93	40	5	0	54	1.23
3274945--3274978	2	16.5	2	87	6	50	47	0	5	47	1.26
3278134--3278174	2	20.5	2	94	0	73	48	2	0	48	1.14
3281318--3281390	19	4.1	18	77	13	71	64	1	0	34	1.02
3281336--3281386	18	2.9	17	80	8	66	66	1	0	31	1.03
3281318--3281407	37	2.4	37	78	14	105	62	2	1	34	1.15
3281441--3281494	21	2.7	21	75	16	60	37	0	3	59	1.15
3281448--3281497	24	2.2	24	85	7	68	42	0	2	56	1.11
3284990--3285021	2	16.5	2	93	6	57	46	0	0	53	1.00
3286841--3286897	23	2.4	23	77	8	62	40	1	0	57	1.09
3286854--3286894	15	2.7	15	82	17	50	46	2	0	51	1.14
3287447--3287497	15	3.3	16	74	17	54	52	0	0	47	1.00
3292508--3292537	15	1.9	16	93	6	53	60	0	0	40	0.97
3292506--3292567	22	2.7	22	82	7	70	59	0	0	40	0.97
3309610--3309636	5	5.4	5	100	0	54	18	0	0	81	0.69
3310130--3310222	33	2.8	32	75	19	82	56	0	1	41	1.06
3310195--3310251	27	2.1	28	83	9	73	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310611--3310653	16	2.8	16	83	16	56	62	0	0	37	0.95
3310615--3310655	13	2.9	14	86	13	57	60	0	0	39	0.96
3312003--3312041	20	2.0	19	85	5	51	53	2	2	41	1.28
3312143--3312190	24	2.0	23	84	11	62	64	2	0	33	1.05
3313290--3313344	24	2.3	25	84	9	78	60	0	1	38	1.08
3313349--3313396	19	2.5	21	87	12	68	58	0	0	41	0.98
3313655--3313694	19	2.2	19	86	13	57	37	0	0	62	0.95
3313755--3313779	11	2.3	11	100	0	50	16	8	0	76	1.02
3315813--3315862	24	2.1	24	88	7	75	46	0	2	52	1.12
3315807--3315891	9	10.1	9	72	20	53	43	1	1	54	1.15
3315827--3315866	14	2.8	15	82	17	50	45	0	0	55	0.99
3318431--3318457	2	13.5	2	100	0	54	48	0	0	51	1.00
3325909--3325957	19	2.4	21	83	10	66	40	0	0	59	0.98
3326868--3326911	7	5.9	7	80	15	52	70	0	4	25	1.06
3326950--3326974	13	1.9	13	100	0	50	72	0	4	24	1.02
3339272--3339305	17	2.0	17	88	11	52	38	0	0	61	0.96
3340185--3340226	21	2.0	21	100	0	84	19	14	23	42	1.87
3344881--3344920	22	1.9	21	85	10	55	30	27	20	22	1.98
3347630--3347671	22	1.9	22	90	0	66	47	9	19	23	1.78
3349224--3349257	2	17.0	2	100	0	68	50	0	0	50	1.00
3363572--3363605	17	1.9	18	88	5	52	64	2	0	32	1.08
3365610--3365662	16	3.2	16	76	10	54	64	0	1	33	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3365647--3365767	8	15.1	8	68	18	65	57	0	0	42	1.04
3365615--3365782	56	2.9	57	75	16	150	57	0	1	40	1.11
3365651--3365766	26	3.6	33	74	24	104	56	0	0	43	1.05
3365652--3365735	31	2.9	26	74	20	78	53	1	0	45	1.08
3365712--3365785	21	3.5	21	79	1	58	58	0	1	40	1.07
3367614--3367650	12	3.2	12	82	17	51	56	0	0	43	0.99
3368537--3368562	2	13.0	2	100	0	52	50	0	0	50	1.00
3368798--3368856	31	1.9	31	86	6	84	38	0	0	61	0.96
3369746--3369780	17	2.1	17	88	0	52	54	5	0	40	1.24
3372683--3372751	22	3.2	20	69	15	57	37	0	2	59	1.12

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