genome.fa.s194.2.7.7.80.10.50.1000.19.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: Scaffold194
Parameters: 2 7 7 80 10 50 1000
Length:  3945165

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   

This is table  19  of  24  ( 2800 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)
3201513--3201609	21	4.7	21	91	5	144	32	16	13	37	1.88
3201533--3201628	21	4.7	20	89	5	86	32	17	13	36	1.89
3203111--3203164	20	2.7	20	85	5	74	35	20	12	31	1.90
3203790--3203841	22	2.4	22	93	0	86	26	36	1	34	1.68
3205735--3205761	13	2.1	13	100	0	54	40	14	14	29	1.86
3212410--3212484	20	3.8	20	83	0	105	32	16	13	38	1.87
3224945--3225041	1	97.0	1	71	0	50	83	9	2	5	0.87
3224945--3225041	18	5.1	18	72	18	72	83	9	2	5	0.87
3226286--3226527	28	8.4	28	84	7	297	29	30	17	21	1.97
3226280--3226527	85	2.9	83	86	6	307	29	31	17	22	1.96
3226286--3226527	57	4.2	56	84	7	297	29	30	17	21	1.97
3227457--3227512	20	2.8	20	83	0	76	35	12	12	39	1.81
3227530--3227584	20	2.8	20	80	0	65	30	10	16	41	1.83
3227447--3227686	71	3.4	71	89	0	381	29	15	12	42	1.84
3231340--3231842	52	9.7	52	75	5	320	37	15	22	25	1.93
3231340--3231842	105	4.8	104	77	6	392	37	15	22	25	1.93
3231340--3231833	157	3.2	154	79	7	507	37	15	22	25	1.93
3231855--3232017	32	5.3	31	75	8	138	22	20	28	28	1.99
3231903--3232017	32	3.6	32	83	5	144	24	18	28	28	1.98
3232000--3232205	28	7.3	28	76	6	85	35	13	24	26	1.93
3232000--3232260	57	4.6	57	74	4	179	36	13	22	26	1.92
3232000--3232353	29	12.3	28	73	7	192	35	12	24	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3232277--3232917	30	21.4	31	72	10	263	30	12	29	26	1.93
3232086--3232924	90	9.4	88	71	10	320	32	12	28	26	1.93
3234307--3234351	20	2.2	21	84	11	58	6	13	6	73	1.24
3234307--3234353	21	2.2	22	82	17	64	6	12	8	72	1.27
3234307--3234371	22	2.9	22	76	21	64	9	13	9	67	1.41
3237873--3237995	52	2.4	51	81	1	147	48	9	10	30	1.70
3240559--3240597	20	1.9	21	85	15	55	41	2	5	51	1.38
3240618--3240664	20	2.2	21	85	7	60	23	6	8	61	1.48
3246866--3246903	8	4.9	8	90	3	60	78	2	0	18	0.86
3250300--3250356	18	3.2	18	92	7	98	28	22	28	21	1.99
3252721--3252761	18	2.2	18	86	8	55	53	0	0	46	1.00
3253436--3253499	10	6.5	11	72	18	52	43	0	0	56	0.99
3253450--3253511	28	2.2	28	83	8	83	35	0	0	64	0.94
3253450--3253518	18	3.6	19	80	16	72	37	0	0	62	0.96
3253460--3253521	28	2.2	28	83	11	74	37	0	0	62	0.95
3253445--3253522	38	2.1	38	83	9	97	39	0	0	60	0.97
3254176--3254200	12	2.1	12	100	0	50	52	0	0	48	1.00
3255929--3255969	20	2.0	21	85	9	57	48	0	2	48	1.14
3256176--3256206	2	15.5	2	100	0	62	51	0	0	48	1.00
3258135--3258160	2	13.0	2	100	0	52	50	0	0	50	1.00
3258888--3258921	14	2.5	14	90	4	52	35	0	0	64	0.94
3258889--3258937	21	2.3	23	83	16	70	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3258915--3258989	21	3.0	25	77	18	77	56	0	0	44	0.99
3259284--3259415	70	1.9	70	84	7	182	53	0	0	45	1.05
3259477--3259656	45	4.2	42	66	22	108	53	2	1	42	1.23
3259339--3259744	124	3.4	121	88	8	570	54	1	1	42	1.22
3259621--3259702	38	2.2	38	86	8	114	56	0	1	42	1.07
3260063--3260110	19	2.5	20	82	6	62	35	2	2	60	1.20
3260083--3260112	15	2.0	15	93	0	51	36	0	0	63	0.95
3260084--3260325	125	2.0	123	92	3	405	42	2	1	52	1.24
3260069--3260376	125	2.4	125	83	11	394	42	2	1	52	1.26
3260368--3260407	15	2.7	15	80	0	53	47	0	0	52	1.00
3260932--3261920	88	10.9	90	83	8	1050	42	7	15	34	1.76
3260932--3261921	181	5.5	182	83	7	1153	42	7	15	34	1.76
3265448--3266101	297	2.2	291	89	3	997	46	7	9	37	1.65
3266107--3266136	15	2.1	14	93	6	51	73	0	0	26	0.84
3266321--3266358	9	4.1	9	86	6	58	44	0	0	55	0.99
3266269--3266335	36	1.9	34	85	8	91	50	0	0	49	1.00
3266321--3266358	19	2.1	18	90	5	58	44	0	0	55	0.99
3266290--3266364	19	4.1	19	70	11	57	50	0	0	49	1.00
3266378--3266521	71	2.1	67	84	7	191	42	0	1	56	1.08
3266657--3266690	16	2.1	17	88	5	52	47	2	2	47	1.32
3267354--3267385	14	2.3	15	89	10	50	62	3	0	34	1.11
3267923--3267965	13	3.2	13	84	12	59	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3267923--3267966	5	9.0	5	85	14	65	40	0	0	59	0.98
3267931--3267990	22	2.8	22	80	7	61	40	0	0	60	0.97
3267996--3268086	45	1.9	49	82	8	118	41	3	0	54	1.16
3268782--3268888	23	5.2	21	67	21	59	42	0	0	57	1.05
3268832--3268897	23	2.9	24	77	18	70	39	3	0	57	1.14
3268782--3268888	26	4.0	26	71	17	94	42	0	0	57	1.05
3269289--3269331	20	2.2	19	83	4	50	46	0	0	53	1.00
3269930--3269962	10	3.0	11	83	16	50	72	0	0	27	0.85
3270402--3270450	25	2.0	25	87	0	71	34	14	8	42	1.75
3270624--3270681	16	3.6	16	77	9	64	39	10	1	48	1.48
3273433--3273473	12	3.4	12	87	9	57	48	0	0	51	1.00
3273433--3273476	13	3.5	13	82	17	65	47	0	0	52	1.00
3273735--3273759	4	6.2	4	100	0	50	24	0	0	76	0.80
3274007--3274050	18	2.4	18	84	0	52	38	0	0	61	0.96
3274681--3274739	26	2.3	26	75	16	61	54	0	1	44	1.10
3274719--3274768	21	2.5	19	81	12	55	64	0	0	36	0.94
3274690--3274762	15	5.3	14	76	18	64	58	0	0	41	0.98
3275204--3275263	25	2.4	25	80	0	84	33	1	13	51	1.51
3276113--3276186	35	2.1	36	89	2	114	47	0	2	50	1.15
3277706--3278009	162	1.9	161	82	4	389	31	9	8	51	1.63
3278575--3278619	10	4.6	10	86	2	56	80	0	13	6	0.91
3278570--3278627	20	2.9	20	82	14	75	79	0	15	5	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279500--3279767	141	1.9	142	85	0	367	34	8	11	44	1.72
3285385--3285422	4	9.2	4	88	5	58	71	0	2	26	1.00
3285776--3285818	22	2.0	21	82	13	52	39	2	9	48	1.48
3288797--3288837	21	2.0	20	90	4	64	51	17	12	19	1.76
3291442--3291640	77	2.5	77	84	5	231	38	7	22	32	1.81
3291627--3291655	15	1.9	15	100	0	58	17	6	48	27	1.72
3291576--3291706	66	2.0	66	90	1	210	32	9	29	28	1.88
3291641--3291981	79	4.3	80	78	5	352	32	12	26	27	1.93
3294363--3294421	20	2.9	21	76	5	66	42	11	15	30	1.83
3294897--3294946	3	16.7	3	100	0	100	32	0	0	68	0.90
3298066--3298104	20	2.0	20	90	10	62	61	10	0	28	1.28
3299065--3299136	36	2.0	36	83	0	90	43	18	8	30	1.79
3299257--3299785	34	15.2	34	71	12	204	38	18	9	33	1.82
3299325--3299785	34	13.3	34	75	4	267	39	18	9	33	1.82
3299502--3299640	71	1.9	71	82	1	170	37	17	10	33	1.85
3299387--3299786	208	1.9	208	80	4	466	38	18	9	34	1.82
3301593--3301641	24	2.0	24	85	14	66	0	10	6	83	0.80
3301595--3301647	18	2.9	18	80	8	54	0	11	7	81	0.88
3301593--3301647	26	2.2	26	80	9	60	0	10	7	81	0.86
3308188--3308233	24	1.9	24	86	8	67	60	8	0	30	1.26
3310464--3310514	20	2.5	20	93	0	93	31	19	11	37	1.88
3314309--3314443	51	2.6	51	94	0	243	40	14	17	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3314993--3315169	20	7.8	20	69	24	111	27	18	11	42	1.85
3315033--3315269	51	4.7	51	95	0	395	26	19	10	44	1.82
3329050--3329112	21	3.3	19	80	10	74	80	12	3	3	0.94
3329052--3329122	18	3.8	18	75	10	52	80	11	4	4	1.00
3329050--3329112	9	6.6	9	77	13	63	80	12	3	3	0.94
3330411--3331217	28	28.5	28	83	3	898	29	30	16	22	1.96
3332163--3332208	20	2.3	20	84	0	56	32	8	15	43	1.77
3332152--3332338	71	2.6	71	86	0	257	28	15	12	43	1.84
3332295--3332338	20	2.0	21	83	16	63	27	15	11	45	1.81
3336960--3337020	20	3.0	20	83	9	70	36	9	16	37	1.82

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