genome.fa.s125.2.7.7.80.10.50.1000.16.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  16  of  18  ( 2131 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)
2913681--2913730	2	25.0	2	100	0	100	50	0	0	50	1.00
2913951--2913977	3	9.0	3	100	0	54	33	0	0	66	0.92
2916527--2916560	2	17.0	2	100	0	68	50	50	0	0	1.00
2916560--2916588	2	14.5	2	100	0	58	51	0	0	48	1.00
2922243--2922288	2	23.0	2	81	0	56	43	2	6	47	1.41
2922243--2922288	16	2.8	16	93	6	74	43	2	6	47	1.41
2929170--2929420	127	2.0	125	90	1	394	33	23	14	28	1.94
2930513--2930540	2	14.0	2	100	0	56	50	0	0	50	1.00
2933938--2933972	2	17.5	2	87	0	52	51	2	45	0	1.16
2937396--2937474	30	3.1	24	75	25	74	60	0	0	39	0.97
2942296--2942373	38	2.1	38	100	0	156	10	17	14	57	1.64
2950882--2950933	18	2.9	18	76	20	56	42	1	3	51	1.31
2953904--2953971	32	2.2	30	84	5	82	47	0	0	52	1.00
2955219--2955271	2	26.5	2	84	0	70	47	1	3	47	1.31
2959267--2959326	18	3.6	18	71	13	56	46	0	0	53	1.00
2959269--2959340	32	2.2	34	85	12	105	45	0	0	54	0.99
2959281--2959343	25	2.4	25	78	19	67	44	0	0	55	0.99
2961563--2961701	73	1.9	75	88	5	212	29	21	14	34	1.93
2965871--2965910	18	2.3	18	87	8	57	70	0	0	30	0.88
2972585--2972614	16	1.9	16	93	6	53	60	0	0	40	0.97
2973321--2973359	14	2.7	14	81	18	53	53	0	0	46	1.00
2973516--2973561	13	3.6	13	79	5	58	69	4	0	26	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974041--2974103	20	3.2	20	80	8	58	53	1	0	44	1.10
2976339--2976381	16	2.7	16	79	13	52	39	2	0	58	1.11
2978888--2978926	5	7.6	5	91	2	51	0	15	0	84	0.62
2978891--2978933	15	2.7	15	82	7	50	2	13	0	83	0.74
2980734--2980801	17	4.0	16	82	5	73	73	0	2	23	0.97
2981654--2981695	14	2.9	15	82	7	50	54	0	0	45	0.99
2982741--2982771	2	15.5	2	100	0	62	0	51	0	48	1.00
2985347--2985407	17	3.5	17	70	4	50	39	0	1	59	1.08
2991761--2991791	11	2.9	11	95	4	55	93	0	6	0	0.35
2991761--2991789	15	2.0	15	93	6	51	96	0	3	0	0.22
2992699--2992768	21	3.4	19	81	15	61	52	0	2	44	1.15
2992824--2992860	11	3.3	11	92	3	56	40	0	0	59	0.97
2995109--2995173	24	2.8	21	78	17	67	40	0	1	58	1.07
2995169--2995223	29	2.0	27	82	7	65	52	1	1	43	1.22
2995208--2995244	13	3.0	13	88	7	51	64	0	0	35	0.94
3006810--3006865	27	2.1	27	93	0	94	26	8	19	44	1.80
3010891--3010937	23	2.1	22	85	14	62	48	0	2	48	1.13
3010885--3010942	23	2.4	25	72	21	61	46	0	1	51	1.11
3011545--3011585	14	2.9	14	82	13	57	36	0	0	63	0.95
3011720--3011764	2	22.5	2	100	0	90	48	0	0	51	1.00
3012589--3012628	21	1.9	21	89	0	62	45	12	32	10	1.75
3019635--3019687	27	2.0	27	88	0	79	49	1	5	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023047--3023099	27	2.0	27	92	0	88	43	5	11	39	1.64
3023045--3023096	12	4.0	12	76	16	50	42	7	9	40	1.66
3028171--3028252	28	2.9	28	85	7	105	25	15	32	25	1.96
3028235--3028671	52	8.4	51	81	4	471	32	11	25	30	1.91
3028235--3028673	104	4.2	103	85	4	553	32	11	25	30	1.91
3028232--3028673	156	2.8	153	81	8	523	32	11	25	30	1.92
3031034--3031059	13	2.0	13	100	0	52	38	15	15	30	1.88
3031013--3031079	33	2.0	33	88	0	98	43	16	14	25	1.86
3031099--3031166	19	3.9	18	76	23	83	38	14	11	35	1.83
3031121--3031145	13	1.9	13	100	0	50	32	16	16	36	1.90
3031102--3031164	32	2.0	32	96	0	117	36	15	12	34	1.86
3040444--3040500	24	2.3	25	75	6	62	49	3	0	47	1.18
3041708--3041755	17	2.9	17	84	9	55	41	0	0	58	0.98
3041775--3041822	21	2.3	20	80	20	55	47	0	0	52	1.00
3045641--3045776	73	1.9	72	96	1	254	38	1	2	58	1.20
3045812--3045871	21	3.4	17	70	20	50	51	0	0	48	1.00
3046367--3046430	34	2.0	34	82	14	82	43	0	0	56	0.99
3046382--3046431	16	2.9	17	72	22	50	44	0	0	56	0.99
3064063--3064101	3	13.0	3	100	0	78	66	0	0	33	0.92
3064507--3064544	2	19.0	2	100	0	76	50	0	50	0	1.00
3065541--3065626	43	2.0	43	100	0	172	37	6	13	41	1.72
3066763--3066797	18	1.9	18	88	11	54	42	0	5	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3069320--3069352	2	16.5	2	100	0	66	0	48	0	51	1.00
3071174--3071216	4	10.8	4	87	0	59	41	2	0	55	1.12
3071174--3071216	6	7.2	6	89	0	59	41	2	0	55	1.12
3071166--3071216	10	5.3	10	83	9	61	43	1	0	54	1.11
3077798--3077843	2	23.0	2	100	0	92	50	0	0	50	1.00
3081619--3081666	16	2.9	17	74	22	57	52	0	0	47	1.00
3081904--3081969	13	4.7	14	72	20	57	59	1	0	39	1.07
3081903--3081937	14	2.5	14	86	13	54	60	0	0	40	0.97
3082597--3082629	2	16.5	2	100	0	66	51	0	0	48	1.00
3083667--3083710	19	2.3	19	88	7	63	54	0	0	45	0.99
3083670--3083716	18	2.6	19	78	18	55	55	0	0	44	0.99
3083649--3083722	22	3.4	22	70	15	64	58	0	0	41	0.98
3084014--3084050	2	18.5	2	100	0	74	51	0	48	0	1.00
3084432--3084475	18	2.4	19	85	11	65	61	0	0	38	0.96
3084432--3084472	17	2.4	17	88	11	66	60	0	0	39	0.96
3084460--3084503	11	3.9	11	78	3	52	70	4	0	25	1.06
3087228--3087256	2	14.5	2	100	0	58	48	0	51	0	1.00
3087392--3087417	2	13.0	2	100	0	52	0	50	0	50	1.00
3089000--3089069	31	2.2	32	89	5	106	34	0	15	50	1.45
3091452--3091500	18	2.8	18	78	3	55	34	0	2	63	1.06
3091505--3091557	27	1.9	27	84	3	70	47	0	1	50	1.12
3091525--3091593	32	2.1	33	89	2	104	46	1	0	52	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3091595--3091652	24	2.5	24	80	11	66	34	5	0	60	1.19
3093597--3093638	22	1.9	22	85	0	57	45	2	2	50	1.27
3095573--3095614	22	2.0	20	86	9	57	40	0	0	59	0.97
3095899--3095938	19	2.1	19	86	9	55	42	5	0	52	1.23
3096202--3096258	17	3.3	18	76	14	57	36	0	0	63	0.95
3096198--3096268	21	3.4	21	76	11	74	39	0	0	60	0.97
3097721--3097767	24	2.0	24	83	8	60	0	21	40	38	1.53
3110289--3110317	2	15.0	2	92	7	51	51	0	0	48	1.00
3112280--3112385	53	2.0	53	88	0	158	15	24	18	41	1.89
3112632--3113056	223	1.9	221	93	3	739	32	20	16	30	1.95
3116190--3116220	2	15.5	2	100	0	62	51	0	0	48	1.00
3119145--3119205	31	2.0	31	90	0	95	59	9	16	14	1.61
3119731--3119773	6	7.2	6	89	7	52	79	0	18	2	0.85
3119731--3119773	19	2.4	18	84	7	52	79	0	18	2	0.85
3120734--3120769	12	3.2	12	77	22	51	38	0	0	61	0.96
3120729--3120769	21	1.9	22	95	5	75	39	0	2	58	1.11
3134246--3134324	26	3.1	26	74	15	76	49	0	2	48	1.14
3138058--3138097	2	20.0	2	100	0	80	0	50	0	50	1.00
3139348--3139372	9	2.8	9	100	0	50	0	32	32	36	1.58
3140779--3140803	7	3.6	7	100	0	50	44	0	0	56	0.99
3141772--3141821	21	2.3	21	77	16	57	56	0	0	44	0.99
3141806--3141840	18	1.9	18	88	0	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3143272--3143316	21	2.1	21	84	8	56	46	2	2	48	1.26
3143444--3143530	40	2.2	39	82	13	106	43	0	0	56	0.99
3146077--3146130	12	4.5	12	78	0	63	7	9	50	33	1.62
3146113--3146332	24	9.2	24	72	5	131	11	10	50	27	1.71
3146077--3146147	36	2.0	36	83	5	90	8	9	49	32	1.66
3146086--3146265	72	2.5	72	85	3	211	10	12	48	28	1.73
3146189--3146319	48	2.7	48	84	0	172	9	10	54	25	1.66
3146132--3146268	72	1.9	72	93	0	238	10	13	48	27	1.75
3146132--3146297	72	2.3	72	87	4	219	10	12	50	25	1.73
3149667--3149697	14	2.2	14	94	0	53	0	9	0	90	0.46

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