genome.fa.s1737.2.7.7.80.10.50.1000.9.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: scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  3416254

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1130 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)
2911797--2911869	29	2.5	30	88	6	105	47	2	6	42	1.44
2927658--2927719	26	2.4	26	89	5	90	38	12	14	33	1.84
2936080--2936344	120	2.2	119	83	4	327	32	15	29	22	1.95
2936023--2936286	40	6.6	40	84	2	298	33	15	29	21	1.95
2936023--2936344	80	4.0	80	74	10	246	32	15	28	22	1.95
2941204--2941260	23	2.5	23	97	0	105	45	0	19	35	1.50
2957736--2957904	41	4.1	41	85	0	194	34	15	26	23	1.95
2957760--2957905	41	3.6	41	88	0	202	33	17	28	21	1.95
2958109--2958151	21	2.0	21	100	0	86	39	23	4	32	1.75
2961181--2961333	49	3.1	49	60	18	109	41	1	14	42	1.53
2961138--2961334	98	2.0	99	98	1	387	39	1	15	44	1.53
2967995--2968032	20	2.0	20	85	10	53	52	5	13	28	1.61
2968924--2968962	15	2.6	15	95	0	69	69	0	5	25	1.09
2968917--2968950	3	11.3	3	87	12	52	67	0	2	29	1.05
2972071--2972155	33	2.6	32	88	1	125	12	52	8	25	1.67
2972074--2972155	32	2.5	33	88	2	121	13	54	7	24	1.64
2977103--2977162	20	2.7	22	80	19	72	48	0	30	21	1.51
2977103--2977153	24	2.1	24	92	7	86	50	0	27	21	1.48
2978605--2978659	24	2.3	24	78	6	58	32	5	50	10	1.60
2978922--2979008	41	2.1	41	89	0	129	16	21	3	58	1.52
2980035--2980165	27	4.9	27	75	7	113	38	17	18	25	1.92
2980035--2980164	54	2.4	54	77	8	129	38	17	17	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2980199--2980304	24	4.4	24	85	0	113	23	7	23	45	1.78
2980476--2980664	32	5.9	32	84	0	252	20	20	20	38	1.94
2982325--2982365	21	2.0	21	85	0	55	36	4	12	46	1.63
2989333--2989371	16	2.4	16	86	4	51	43	15	10	30	1.80
2991787--2991832	22	2.1	22	95	0	83	21	21	30	26	1.99
2992606--2992661	29	1.9	29	88	0	85	26	1	16	55	1.51
2994795--2994851	30	1.9	30	89	7	89	45	10	3	40	1.56
2997479--2997513	12	2.8	13	86	8	54	45	0	0	54	0.99
2999430--2999470	22	1.9	21	90	5	64	39	2	0	58	1.11
3000055--3000089	12	2.8	13	86	8	54	45	0	0	54	0.99
3000312--3000354	22	2.0	22	86	9	61	37	6	0	55	1.27
3014152--3014180	15	1.9	15	100	0	58	27	27	13	31	1.94
3014968--3015037	31	2.3	31	95	2	124	27	10	22	40	1.86
3024188--3024241	24	2.2	25	83	3	65	55	5	16	22	1.62
3035150--3035295	50	2.9	50	83	0	166	23	29	21	25	1.99
3038653--3039077	210	2.0	210	96	0	787	30	12	22	34	1.91
3050008--3050045	3	12.7	3	88	0	58	36	0	28	34	1.58
3050313--3050343	16	2.0	16	93	6	55	70	0	0	29	0.87
3060895--3061116	50	4.3	49	79	4	201	22	25	23	27	2.00
3060876--3061116	100	2.3	103	80	5	247	23	26	22	27	2.00
3067884--3068126	50	4.7	50	78	5	227	24	27	21	26	1.99
3067883--3068126	100	2.4	101	81	4	256	24	27	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3068470--3068527	30	1.9	30	89	0	89	32	25	5	36	1.78
3073201--3073230	14	2.1	15	93	6	53	23	30	0	46	1.52
3076208--3076249	18	2.3	18	80	8	50	54	2	2	40	1.26
3080056--3080108	13	4.1	13	80	0	70	33	28	7	30	1.85
3080222--3080343	23	5.3	23	80	0	154	31	26	20	21	1.98
3080229--3080343	46	2.5	46	89	0	176	32	26	20	20	1.98
3085934--3085979	23	2.0	23	100	0	92	34	0	13	52	1.40
3086379--3086471	45	2.1	44	88	6	134	36	23	4	35	1.75
3086453--3086492	16	2.5	16	88	8	55	30	22	7	40	1.81
3091750--3091830	42	1.9	42	87	5	119	27	23	3	45	1.69
3107065--3107143	41	1.9	42	82	12	101	24	22	5	48	1.71
3110234--3110448	32	6.8	31	80	5	157	36	22	21	19	1.95
3110263--3110447	32	5.8	32	80	3	158	35	23	21	19	1.96
3110505--3110547	21	2.1	20	91	4	68	32	30	25	11	1.91
3110612--3110670	24	2.5	23	81	8	73	47	23	6	22	1.75
3110734--3110870	27	5.1	27	79	1	150	22	21	18	37	1.94
3110743--3110870	53	2.4	54	85	1	168	22	21	18	36	1.95
3110847--3110964	26	4.4	27	82	11	102	20	19	19	40	1.91
3110847--3110992	53	2.8	54	80	12	144	20	18	18	42	1.89
3110820--3111004	27	6.9	27	80	6	144	21	17	18	42	1.90
3118141--3118190	25	2.0	25	92	0	82	28	24	30	18	1.97
3121553--3121597	20	2.2	21	92	7	76	44	0	11	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122931--3123073	75	1.9	75	91	2	234	42	10	15	31	1.81
3123163--3123378	71	3.1	70	65	18	180	38	8	5	47	1.57
3123054--3123467	137	3.0	137	91	1	636	40	7	5	46	1.57
3142641--3142703	30	2.1	30	96	0	117	34	22	9	33	1.86
3155305--3155380	38	2.0	38	100	0	152	55	7	18	18	1.66
3157018--3157062	23	1.9	24	90	4	74	42	4	6	46	1.50
3157111--3157887	396	2.0	396	97	0	1473	37	16	14	31	1.89
3161992--3162021	15	2.0	15	93	0	51	20	23	16	40	1.91
3173184--3173247	25	2.6	25	78	7	69	25	23	21	29	1.99
3174161--3174377	112	1.9	112	100	0	434	29	14	27	28	1.95
3176481--3176645	45	3.7	45	85	1	179	40	15	22	21	1.90
3197160--3197196	13	2.8	13	83	0	56	16	13	8	62	1.54
3198844--3198891	19	2.6	19	90	3	80	33	25	20	20	1.97
3200124--3200175	20	2.6	20	90	0	86	28	3	21	46	1.69
3203887--3203927	21	2.0	21	85	0	55	12	24	34	29	1.91
3204185--3204227	18	2.4	18	92	0	68	46	9	27	16	1.77
3204280--3204352	30	2.4	30	77	8	76	8	12	47	31	1.70
3206063--3206130	11	6.2	11	86	11	86	44	0	33	22	1.53
3206063--3206130	33	2.1	33	86	10	95	44	0	33	22	1.53
3207050--3207105	21	2.7	21	88	0	76	28	30	7	33	1.84
3207425--3207468	6	7.2	6	86	2	61	0	59	0	40	0.98
3207425--3207468	18	2.4	18	92	3	70	0	59	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207527--3207587	25	2.4	27	78	18	76	4	34	3	57	1.36
3207692--3207724	12	2.8	12	95	0	57	57	9	15	18	1.63
3208046--3208070	13	1.9	13	100	0	50	16	8	4	72	1.24
3210589--3210621	12	2.8	12	90	4	50	42	33	18	6	1.75
3214469--3214511	22	2.0	22	81	9	52	27	11	4	55	1.55
3217355--3217394	3	13.3	3	89	0	62	0	27	40	32	1.57
3220859--3220897	21	1.9	20	84	5	51	25	5	0	69	1.09
3221074--3221123	25	2.0	25	84	0	64	14	4	4	78	1.05
3222853--3222897	11	3.9	11	77	11	54	35	2	4	57	1.31
3222932--3222963	2	16.0	2	100	0	64	50	0	50	0	1.00
3224101--3224127	2	13.5	2	100	0	54	51	0	0	48	1.00
3226692--3226738	17	2.8	17	80	6	51	29	12	14	42	1.83
3235039--3235106	36	1.9	36	93	3	120	39	20	4	35	1.73
3234905--3235253	189	1.8	189	86	4	508	30	11	7	49	1.67
3235068--3235606	152	3.5	153	89	4	809	30	10	8	50	1.65
3235484--3236347	433	2.0	433	100	0	1728	31	19	18	29	1.96
3236382--3236420	16	2.5	16	87	4	53	48	2	7	41	1.45
3236471--3236569	40	2.6	36	81	10	110	39	4	7	49	1.49
3236515--3236584	16	4.7	16	69	16	60	34	1	10	54	1.43
3238963--3239189	43	5.4	42	78	8	221	35	25	17	22	1.95
3238955--3239192	85	2.8	84	88	1	332	34	25	18	22	1.96
3238963--3239189	42	5.4	42	78	7	237	35	25	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239168--3239218	26	2.0	26	92	0	84	23	33	25	17	1.96
3245367--3245414	22	2.0	23	84	11	62	39	2	4	54	1.32
3246811--3246884	29	2.5	29	84	8	87	32	14	9	43	1.78
3247437--3247484	22	2.0	23	84	11	62	39	2	4	54	1.32
3248244--3248269	13	2.0	13	100	0	52	84	0	7	7	0.77
3248120--3248480	170	2.2	165	92	5	595	59	4	18	17	1.55
3252258--3252363	53	2.0	53	85	3	142	34	12	23	29	1.91
3252539--3252614	29	2.6	28	84	10	100	28	19	25	26	1.99
3257176--3257296	26	4.7	26	97	1	226	34	8	21	35	1.83
3265231--3265278	20	2.3	22	82	10	57	31	6	6	56	1.49

Tables:   1   2   3   4   5   6   7   8   9   10