genome.fa.s10.2.7.7.80.10.50.1000.19.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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  19  of  25  ( 2970 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)
2952434--2952507	16	4.6	16	83	5	87	36	1	1	60	1.13
2952444--2952494	15	3.3	15	86	8	59	35	0	0	64	0.94
2952434--2952496	31	2.0	32	87	6	92	36	0	1	61	1.05
2953071--2953108	16	2.3	17	86	4	51	47	0	0	52	1.00
2953071--2953156	32	2.6	34	76	9	88	48	1	0	50	1.08
2953159--2953189	11	2.9	11	95	4	55	74	0	0	25	0.82
2953530--2953951	117	3.6	115	81	6	465	41	10	7	39	1.69
2953530--2953951	234	1.8	233	83	5	564	41	10	7	39	1.69
2953530--2953998	117	4.0	116	79	6	453	40	10	7	41	1.68
2954118--2954164	20	2.3	20	75	7	51	46	0	0	53	1.00
2954667--2954710	22	2.0	23	86	13	65	47	0	2	50	1.13
2955483--2955528	22	2.1	22	84	8	58	39	0	2	58	1.10
2955837--2955929	10	8.5	12	64	22	53	37	1	2	59	1.17
2955857--2955935	22	3.5	22	75	14	65	35	1	2	60	1.18
2955857--2955932	5	14.8	5	78	17	52	35	1	2	60	1.19
2956208--2956262	18	2.9	19	75	22	53	61	1	0	36	1.06
2956254--2956298	20	2.3	20	84	3	56	55	0	2	42	1.12
2956316--2956357	4	10.8	4	84	5	50	0	21	0	78	0.75
2957470--2957520	14	3.4	14	75	19	57	45	0	1	52	1.12
2957786--2957829	2	22.0	2	95	0	79	50	2	0	47	1.13
2959761--2959785	7	3.6	7	100	0	50	60	0	0	40	0.97
2961685--2961721	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2961719--2961758	4	10.0	4	83	0	53	50	30	0	20	1.49
2964036--2964082	21	2.2	20	82	10	58	55	0	0	44	0.99
2964863--2964936	24	2.9	24	76	20	69	54	2	0	43	1.14
2967840--2967896	16	3.6	16	79	6	55	57	3	3	35	1.33
2967866--2967912	17	2.7	18	87	9	62	57	0	2	40	1.11
2967867--2967920	27	2.0	26	86	13	74	57	0	1	40	1.09
2970850--2971599	374	2.0	374	98	0	1439	29	23	15	31	1.95
2971920--2971976	27	2.1	26	84	12	71	57	5	5	31	1.43
2974778--2974838	12	5.5	11	72	20	56	55	1	1	40	1.19
2977610--2977658	21	2.3	20	77	19	55	28	0	0	71	0.86
2978168--2978231	32	1.9	31	84	12	83	46	0	0	53	1.00
2979810--2979844	2	17.5	2	100	0	70	51	0	0	48	1.00
2981373--2981404	15	2.1	15	94	0	55	37	0	3	59	1.13
2985676--2985733	24	2.3	26	91	5	93	32	25	15	25	1.95
2988337--2988382	21	2.1	22	84	4	58	30	19	30	19	1.97
2990246--2990303	24	2.3	26	91	5	93	32	25	15	25	1.95
2990837--2990871	15	2.4	15	90	4	54	57	5	0	37	1.23
2991969--2991999	11	2.8	11	100	0	62	64	6	0	29	1.18
2993360--2993431	27	2.7	26	80	8	72	27	6	13	51	1.67
2997932--2998019	28	3.3	27	78	7	92	28	4	20	46	1.70
2997927--2998003	28	2.8	28	80	2	93	27	3	20	48	1.67
2998695--2998757	18	3.3	20	70	20	55	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998683--2998759	22	3.4	23	74	15	63	46	0	0	53	1.00
2998700--2998760	22	2.7	24	80	14	67	49	0	0	50	1.00
2999026--2999179	79	2.0	77	84	2	200	38	3	7	49	1.50
3000609--3000829	34	6.5	33	81	9	257	41	26	7	24	1.81
3000611--3000829	68	3.2	67	85	3	287	41	26	7	25	1.81
3000609--3000829	102	2.2	101	88	1	343	41	26	7	24	1.81
3005236--3005455	34	6.5	33	81	9	255	40	26	7	25	1.82
3005238--3005452	68	3.2	67	86	3	288	40	26	7	25	1.83
3005236--3005455	102	2.2	101	88	1	341	40	26	7	25	1.82
3009501--3009563	28	2.2	28	86	5	92	19	7	19	53	1.68
3009554--3009612	24	2.3	27	74	17	70	23	5	18	52	1.65
3014146--3014215	24	2.7	26	76	10	81	22	5	22	48	1.72
3014494--3014879	186	2.1	186	90	1	596	38	11	7	42	1.71
3014840--3015032	97	2.0	97	86	0	269	34	20	13	31	1.92
3015697--3015747	22	2.4	22	84	12	70	60	0	1	37	1.08
3020666--3020713	17	2.9	17	81	3	62	29	0	0	70	0.87
3021044--3021082	13	3.0	12	85	14	51	28	0	2	69	1.02
3021176--3021216	17	2.4	18	84	12	59	58	0	0	41	0.98
3023848--3023884	18	2.1	18	90	10	58	62	0	0	37	0.96
3023896--3023951	24	2.7	19	72	25	51	55	1	0	42	1.10
3027894--3028025	63	2.1	63	95	0	237	32	20	13	33	1.92
3029200--3029226	13	2.1	13	100	0	54	25	22	7	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3031659--3031683	2	12.5	2	100	0	50	52	0	0	48	1.00
3033961--3034038	20	3.9	20	71	24	58	52	0	0	47	1.00
3035005--3035049	16	2.9	16	76	3	56	46	0	0	53	1.00
3035020--3035096	21	3.6	21	75	14	59	53	1	0	45	1.08
3035045--3035082	6	6.3	6	85	11	51	55	0	0	44	0.99
3035351--3035841	245	2.0	246	90	1	779	26	26	13	33	1.93
3035712--3035856	37	4.1	35	84	6	184	27	35	7	28	1.84
3035712--3035856	72	2.0	70	84	6	184	27	35	7	28	1.84
3036364--3036406	2	22.5	2	90	9	72	46	0	0	53	1.00
3036363--3036407	15	3.1	15	87	12	76	44	0	0	55	0.99
3037140--3037177	12	3.2	12	82	17	53	39	0	5	55	1.23
3037776--3037811	15	2.4	15	90	0	54	33	2	2	61	1.25
3038222--3038266	17	2.8	17	75	18	51	57	0	0	42	0.98
3038196--3038312	32	3.3	35	69	23	84	47	0	2	50	1.15
3038554--3038624	23	3.2	21	80	11	63	70	2	2	23	1.14
3038556--3038624	22	3.0	22	80	8	66	69	2	2	24	1.16
3038857--3038901	18	2.4	20	75	24	53	51	0	0	48	1.00
3038866--3038911	17	2.8	17	75	18	53	56	0	0	43	0.99
3039010--3039042	16	2.0	17	94	5	59	27	0	0	72	0.85
3039241--3039298	23	2.5	21	81	18	55	68	3	1	25	1.14
3039521--3039556	2	18.0	2	94	0	63	47	0	2	50	1.15
3039869--3039905	18	2.0	19	89	5	58	2	13	0	83	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039868--3039905	19	2.0	19	90	10	60	2	13	0	84	0.73
3039995--3040041	16	2.7	17	83	12	60	53	0	0	46	1.00
3040245--3040307	24	2.7	23	76	13	74	50	0	0	49	1.00
3040664--3040728	21	2.9	23	76	17	82	67	0	3	29	1.05
3040722--3040808	16	5.2	16	72	15	52	56	0	0	43	0.99
3040715--3040804	32	3.0	28	71	16	74	56	0	1	42	1.06
3041197--3041257	12	5.0	12	74	14	54	67	0	0	32	0.91
3041259--3041313	11	5.2	10	80	10	56	50	0	0	49	1.00
3041201--3041293	24	3.8	24	72	15	73	62	0	0	37	0.96
3042951--3042988	15	2.4	17	87	12	55	47	0	0	52	1.00
3051470--3051565	27	3.6	27	77	5	81	46	16	9	27	1.77
3052405--3052429	8	3.1	8	100	0	50	76	0	0	24	0.80
3053520--3053548	15	2.0	15	93	6	51	41	0	0	58	0.98
3053515--3053564	23	2.1	24	88	3	75	46	0	0	54	1.00
3053534--3053575	19	2.3	19	91	4	68	38	0	0	61	0.96
3053530--3053583	28	1.9	28	81	7	65	35	0	0	64	0.94
3056009--3056033	2	12.5	2	100	0	50	48	0	0	52	1.00
3056614--3056654	18	2.3	18	83	8	57	53	0	0	46	1.00
3056611--3056666	24	2.2	27	84	9	73	55	0	0	44	0.99
3056726--3056773	17	2.7	18	83	6	53	43	0	2	54	1.12
3057409--3057451	17	2.5	17	76	0	50	41	0	0	58	0.98
3057420--3057461	22	1.9	22	85	9	59	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3057683--3057755	13	5.9	13	71	21	59	65	0	1	32	1.01
3057685--3057758	34	2.1	35	85	9	98	63	0	1	35	1.03
3057697--3057757	8	7.2	8	73	15	52	65	0	1	32	1.02
3057668--3057764	32	3.1	30	73	17	81	63	1	1	34	1.08
3058852--3058955	11	9.8	11	74	20	57	62	0	0	37	0.95
3058868--3058901	17	2.0	17	94	0	59	67	0	0	32	0.91
3058883--3058948	24	2.8	23	84	8	89	63	0	0	36	0.95
3058855--3058935	24	3.1	27	74	16	82	62	0	0	37	0.95
3058865--3058955	25	4.0	22	74	13	76	61	0	0	38	0.96
3058904--3058979	32	2.3	33	84	6	93	53	1	0	44	1.08

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