genome.fa.s2294.2.7.7.80.10.50.1000.10.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  10  of  14  ( 1587 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)
3093769--3093839	21	3.4	21	82	0	97	1	40	16	40	1.58
3096108--3096340	9	25.2	9	68	14	93	34	1	18	46	1.57
3096112--3096291	43	4.4	43	69	20	150	35	1	17	45	1.59
3096113--3096326	121	1.8	114	89	7	329	34	1	18	46	1.58
3096522--3096679	77	2.1	77	88	8	236	47	6	10	36	1.63
3096797--3096935	66	2.1	66	83	2	172	49	11	4	34	1.59
3096818--3096948	66	2.0	66	84	3	174	47	12	4	35	1.63
3099852--3100093	7	33.9	7	73	8	130	44	34	1	19	1.59
3099881--3099927	15	3.2	14	80	17	51	34	46	2	17	1.59
3100409--3100655	114	2.2	115	87	0	361	28	23	21	26	1.99
3100590--3100695	40	2.7	40	85	5	126	24	27	22	25	2.00
3100491--3100830	154	2.2	154	88	3	488	26	25	20	27	1.99
3103264--3103305	18	2.3	18	91	0	66	42	7	28	21	1.79
3104835--3104887	25	2.2	24	83	10	63	69	1	0	28	0.99
3105067--3105131	11	5.9	11	78	12	71	43	0	27	29	1.56
3105067--3105135	33	2.1	33	89	5	104	44	0	26	28	1.54
3106727--3106772	23	2.0	23	100	0	92	30	30	13	26	1.93
3108181--3108354	85	2.0	85	90	2	269	39	12	29	19	1.88
3110317--3110354	20	1.9	20	88	0	58	36	18	31	13	1.89
3116447--3116532	44	2.0	43	84	11	113	31	23	22	23	1.98
3119921--3120017	25	3.9	25	94	0	158	24	19	22	32	1.97
3125661--3125700	20	2.0	20	90	0	62	15	25	7	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3125959--3126135	50	3.4	50	80	4	165	24	27	22	25	2.00
3137936--3137995	27	2.2	28	82	14	81	41	20	20	18	1.90
3137957--3138030	27	2.7	27	82	0	76	44	21	24	9	1.82
3139876--3139934	25	2.4	25	82	0	73	22	20	23	33	1.97
3139978--3140025	13	3.5	13	85	5	60	43	2	25	29	1.66
3139987--3140050	13	4.9	13	82	3	76	42	4	21	31	1.74
3139978--3140050	26	2.7	26	83	8	76	42	4	23	30	1.73
3140006--3140061	26	2.2	26	83	6	69	46	3	23	26	1.68
3153398--3153422	8	3.1	8	100	0	50	88	0	0	12	0.53
3154348--3154380	16	2.1	16	88	11	50	54	9	12	24	1.66
3154891--3154931	17	2.4	17	88	8	57	78	0	2	19	0.87
3154891--3154931	8	4.8	9	79	11	50	78	0	2	19	0.87
3155772--3156354	50	11.7	50	68	9	332	25	20	22	32	1.98
3155696--3156384	100	6.9	99	81	3	729	25	20	21	32	1.98
3155696--3156384	200	3.4	199	84	3	837	25	20	21	32	1.98
3157642--3157683	21	2.0	21	85	4	57	11	16	0	71	1.14
3157660--3157686	13	2.1	13	100	0	54	14	14	0	70	1.17
3158545--3158574	14	2.1	15	93	6	53	3	20	0	76	0.92
3158565--3158635	27	2.6	27	86	2	106	8	8	7	76	1.17
3158593--3158664	33	2.1	34	82	10	85	11	5	5	77	1.10
3158565--3158635	28	2.6	26	84	6	97	8	8	7	76	1.17
3164121--3164153	16	2.1	16	88	11	50	54	9	12	24	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3164397--3164665	134	2.0	134	100	0	538	37	17	14	31	1.89
3164797--3164837	17	2.4	17	88	8	57	78	0	2	19	0.87
3164797--3164837	8	4.8	9	79	11	50	78	0	2	19	0.87
3166104--3166168	25	2.6	25	85	0	76	16	26	20	36	1.93
3166262--3166328	27	2.6	24	78	17	71	19	29	17	32	1.95
3167064--3167100	2	18.5	2	100	0	74	0	0	51	48	1.00
3168111--3168180	25	2.8	25	89	4	106	21	22	22	32	1.98
3169781--3169815	18	2.0	18	88	5	54	14	25	42	17	1.86
3170551--3170581	15	2.0	16	93	6	55	54	0	25	19	1.44
3171047--3171076	16	1.9	16	93	6	53	30	0	20	50	1.49
3173117--3173435	69	4.6	68	79	3	316	36	23	21	18	1.95
3173130--3173446	138	2.3	137	82	4	370	37	23	21	17	1.94
3173492--3173610	58	2.1	58	88	3	177	39	13	12	34	1.82
3180663--3180724	22	2.7	22	90	5	88	48	1	1	48	1.21
3180698--3180754	16	3.6	16	90	0	87	47	3	3	45	1.37
3183740--3183802	16	3.9	16	76	0	63	39	4	25	30	1.76
3188108--3188339	50	4.6	50	73	0	203	26	24	19	29	1.98
3188107--3188345	100	2.4	100	97	0	451	26	24	19	29	1.98
3211694--3211718	4	6.2	4	100	0	50	48	28	0	24	1.52
3217224--3217627	203	2.0	201	98	0	781	32	18	11	38	1.86
3219495--3219578	19	4.5	18	71	11	71	39	3	5	51	1.44
3219465--3219577	56	2.0	57	98	1	219	39	5	5	49	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3221757--3221819	31	2.0	31	96	0	117	41	0	14	44	1.45
3222214--3222267	22	2.4	23	81	12	67	25	27	3	42	1.72
3222214--3222267	11	4.8	12	74	19	53	25	27	3	42	1.72
3222278--3222307	11	2.7	11	94	0	51	30	23	6	40	1.80
3222238--3222315	40	2.0	40	84	5	104	29	26	2	41	1.69
3230471--3230737	69	3.9	69	100	0	534	47	5	18	28	1.72
3241568--3241634	33	2.0	33	97	0	125	28	31	2	37	1.72
3241838--3241995	42	3.7	43	80	4	169	30	25	13	30	1.94
3245196--3245228	15	2.2	15	100	0	66	51	6	6	36	1.51
3245707--3245839	42	3.2	42	100	0	266	51	16	22	9	1.74
3247293--3247418	63	2.0	63	85	0	171	36	11	15	35	1.85
3248918--3248966	9	5.7	9	80	9	66	44	22	8	24	1.79
3248920--3248950	16	1.9	16	100	0	62	38	25	9	25	1.86
3251573--3251623	21	2.5	20	81	9	57	33	17	5	43	1.73
3257941--3257985	21	2.2	21	88	4	65	28	6	6	57	1.50
3257967--3258474	253	2.0	254	99	0	1009	38	6	10	43	1.66
3264374--3264399	11	2.4	11	100	0	52	38	7	0	53	1.30
3264354--3264419	10	6.6	10	71	25	50	37	3	0	59	1.13
3264458--3264538	41	2.0	41	95	0	144	18	25	34	20	1.96
3272252--3272300	7	7.1	7	97	2	91	14	40	14	30	1.85
3279287--3279407	39	3.2	39	67	11	124	39	4	3	52	1.40
3279309--3279422	36	3.1	36	66	12	104	42	5	2	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3279267--3279422	75	2.1	76	98	1	305	40	3	2	53	1.33
3281447--3281474	6	4.7	6	100	0	56	85	0	14	0	0.59
3282132--3282161	9	3.3	9	100	0	60	43	0	0	56	0.99
3287572--3287601	15	2.0	15	93	0	51	63	6	3	26	1.35
3287786--3287828	21	2.0	21	100	0	86	30	9	13	46	1.75
3290793--3290914	37	3.1	40	75	8	124	33	21	18	27	1.96
3310789--3310821	2	16.5	2	100	0	66	51	0	0	48	1.00
3316563--3316760	105	1.9	101	83	4	252	27	22	15	34	1.94
3316651--3316734	33	2.6	32	79	5	87	28	19	14	38	1.90
3319531--3319579	9	5.1	9	76	13	53	38	0	20	40	1.53
3319619--3319696	18	4.1	18	64	16	50	42	5	8	43	1.58
3319692--3320268	30	18.1	30	81	12	677	42	1	10	45	1.49
3319673--3320292	97	6.4	97	100	0	1240	42	2	10	45	1.49
3320269--3320334	20	3.2	20	80	16	89	37	9	4	48	1.55
3322568--3322595	7	4.0	7	100	0	56	71	14	0	14	1.15
3323313--3323360	24	1.9	25	87	8	71	37	4	8	50	1.52
3323842--3323962	14	8.7	15	67	17	55	38	38	0	23	1.61
3323952--3324019	15	4.4	15	67	18	50	52	23	1	22	1.55
3324091--3324132	7	6.0	7	78	10	50	30	47	0	21	1.51
3324095--3324132	15	2.7	14	88	11	60	34	44	0	21	1.52
3324091--3324157	35	1.9	35	84	0	89	35	43	0	20	1.53
3324821--3325150	114	2.9	113	78	4	306	29	23	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328099--3328123	3	8.3	3	100	0	50	64	0	36	0	0.94
3335095--3335247	62	2.5	62	93	0	252	22	26	20	30	1.99
3352668--3352697	15	2.0	15	93	0	51	66	3	3	26	1.23
3354913--3354943	15	2.1	15	93	0	53	19	29	19	32	1.96
3370291--3370334	18	2.5	18	77	3	54	25	0	6	68	1.14
3375222--3375259	14	2.7	14	95	0	67	23	13	13	50	1.76
3376738--3376789	26	2.0	26	81	7	61	50	5	0	44	1.26
3377266--3377871	303	2.0	303	99	0	1196	34	16	11	37	1.85
3388847--3388895	17	2.7	18	84	9	73	36	8	0	55	1.30
3390603--3390634	16	2.0	16	93	0	55	65	21	6	6	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14