genome.fa.s55.2.7.7.80.10.50.1000.14.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2443 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)
3059316--3061544	159	14.2	157	66	14	582	31	18	14	35	1.92
3060996--3061602	311	1.9	310	81	6	735	31	17	14	35	1.90
3061238--3064146	470	6.2	473	81	5	3013	32	18	13	34	1.90
3063586--3063896	158	2.0	156	79	8	335	36	17	13	33	1.88
3064140--3066329	475	4.6	475	81	4	2477	31	18	13	35	1.90
3064140--3066329	950	2.3	950	83	3	2726	31	18	13	35	1.90
3065490--3067198	869	2.0	867	87	2	2453	31	17	14	36	1.90
3066357--3068969	476	5.5	475	82	3	2853	31	18	13	36	1.90
3068714--3069244	275	1.9	275	88	2	798	29	19	14	37	1.90
3070180--3070232	26	2.0	26	96	0	97	37	22	13	26	1.91
3068971--3075617	946	7.0	948	84	4	7336	31	18	14	35	1.91
3068971--3075617	475	14.1	475	81	4	7079	31	18	14	35	1.91
3075615--3083839	476	17.4	476	83	3	8790	31	18	14	35	1.91
3084235--3084282	13	4.2	13	70	29	54	31	12	18	37	1.88
3084217--3084282	33	2.0	33	88	11	100	33	12	18	36	1.88
3090438--3090477	13	3.1	13	96	0	71	30	12	15	42	1.83
3093307--3095203	477	4.0	476	79	7	2007	35	13	18	32	1.90
3094847--3095633	317	2.5	316	83	3	954	37	13	18	30	1.89
3096468--3098083	451	3.5	452	80	9	1649	35	13	18	31	1.90
3098487--3098512	13	2.0	13	100	0	52	38	15	15	30	1.88
3100730--3100774	21	2.1	21	84	8	56	53	4	20	22	1.63
3102578--3102608	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104622--3104701	20	3.8	20	78	15	88	27	15	13	43	1.84
3104687--3104725	13	3.0	13	100	0	78	30	15	15	38	1.88
3104846--3104892	21	2.3	21	79	20	55	34	19	4	42	1.70
3104848--3104890	20	2.2	19	84	16	52	32	18	4	44	1.71
3107274--3107299	13	2.0	13	100	0	52	38	15	15	30	1.88
3108625--3108740	57	2.0	57	91	0	187	18	18	20	43	1.89
3108912--3108951	12	3.4	12	89	6	64	17	22	15	45	1.85
3114854--3115445	154	3.8	153	79	6	518	22	17	20	39	1.92
3114854--3115454	155	3.9	155	79	5	601	22	17	20	39	1.92
3118854--3119181	157	2.1	159	82	5	396	39	14	11	35	1.82
3123788--3124158	164	2.3	164	84	5	482	31	10	9	48	1.70
3124374--3124398	5	5.0	5	100	0	50	20	0	0	80	0.72
3132153--3132373	91	2.4	91	86	2	284	30	25	12	31	1.92
3132860--3132976	46	2.5	45	80	5	126	23	25	12	38	1.90
3132990--3133117	41	3.2	40	77	4	123	17	23	14	44	1.85
3132997--3133075	40	2.0	41	85	7	108	15	20	18	45	1.85
3132990--3133230	81	3.0	81	81	2	252	18	23	14	43	1.86
3133054--3133209	41	3.8	41	77	1	170	18	25	12	43	1.85
3133258--3133405	43	3.5	43	70	9	140	17	20	13	48	1.80
3133258--3133561	43	7.2	42	66	14	135	19	22	12	45	1.84
3133239--3133656	169	2.5	168	81	5	459	19	23	12	44	1.85
3133227--3133656	85	5.1	85	83	6	464	19	23	12	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3136934--3137020	28	3.1	28	85	4	106	32	16	11	40	1.84
3137022--3137120	52	1.9	52	89	0	153	34	16	12	37	1.85
3137169--3137198	15	2.1	15	93	6	53	23	6	0	70	1.11
3139062--3139312	78	3.2	78	80	7	287	33	13	24	28	1.93
3139168--3139506	130	2.6	131	80	5	377	34	12	23	28	1.92
3139379--3139478	51	2.0	51	89	0	155	34	11	22	33	1.89
3139384--3139493	51	2.2	51	86	3	150	34	11	21	31	1.90
3141972--3142079	20	5.8	20	77	16	79	43	14	12	28	1.83
3142011--3142041	13	2.4	13	94	0	53	41	16	12	29	1.85
3141989--3142061	33	2.2	33	90	0	110	43	15	13	27	1.84
3142597--3142697	40	2.5	40	81	10	116	43	9	28	17	1.81
3142704--3142868	45	3.8	44	74	17	157	41	10	27	20	1.85
3142857--3143351	61	8.1	61	87	4	669	28	19	27	24	1.98
3143296--3143472	94	1.9	96	91	2	295	24	19	29	25	1.98
3143391--3143694	55	5.4	55	81	9	362	24	21	26	27	1.99
3143391--3143694	118	2.7	110	81	9	378	24	21	26	27	1.99
3143715--3143833	61	2.0	61	94	3	213	28	18	27	25	1.98
3143879--3144089	61	3.4	61	86	3	282	26	20	27	26	1.99
3147864--3148273	79	5.2	79	82	2	468	33	14	24	27	1.94
3147864--3148273	157	2.6	157	83	3	509	33	14	24	27	1.94
3148208--3148323	51	2.3	51	85	7	155	32	10	25	31	1.89
3153509--3153560	20	2.7	20	87	3	70	28	13	19	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3154697--3154735	16	2.4	16	87	8	53	0	25	0	74	0.82
3155050--3155628	166	3.5	165	78	7	526	50	8	10	31	1.66
3155207--3155724	166	3.1	167	81	6	471	50	9	10	28	1.68
3156289--3156816	47	11.2	48	72	9	241	40	16	21	21	1.91
3156470--3156962	94	5.2	93	76	5	409	42	16	20	20	1.89
3156516--3156945	188	2.3	189	83	3	528	42	17	19	20	1.89
3156413--3156923	47	10.9	47	71	8	218	41	16	21	21	1.90
3157864--3157893	16	1.9	15	93	6	51	40	20	16	23	1.91
3160050--3160087	19	2.0	19	85	10	51	5	18	0	76	0.97
3160046--3160097	14	3.7	14	80	7	52	5	19	0	75	1.01
3160618--3160904	147	2.0	147	81	4	337	50	12	8	28	1.69
3162330--3162883	94	5.9	95	79	4	525	40	18	21	20	1.92
3162238--3162913	188	3.6	187	78	7	622	40	17	21	20	1.91
3162465--3162904	142	3.1	140	78	7	460	42	18	19	19	1.89
3162230--3162913	47	14.6	47	75	6	417	40	17	21	20	1.91
3165453--3165486	17	2.1	17	88	5	52	44	5	17	32	1.73
3169903--3169927	13	1.9	13	100	0	50	36	16	16	32	1.90
3171899--3171958	21	2.9	21	79	20	72	53	1	25	20	1.55
3174363--3174387	13	1.9	13	100	0	50	36	16	16	32	1.90
3174413--3174450	20	1.9	20	94	0	67	39	13	7	39	1.73
3175678--3175702	13	1.9	13	100	0	50	32	16	16	36	1.90
3175825--3175880	14	3.7	14	70	25	51	28	19	8	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3189727--3191750	475	4.2	475	87	1	2788	31	18	13	36	1.90
3193627--3193657	13	2.4	13	94	0	53	35	12	16	35	1.87
3193610--3193673	33	1.9	33	84	12	87	34	18	10	35	1.86
3193702--3193756	19	2.8	20	80	5	67	36	12	14	36	1.84
3194338--3194382	22	2.0	22	91	0	72	35	24	0	40	1.56
3202319--3202343	13	1.9	13	100	0	50	32	16	20	32	1.94
3202390--3202465	20	3.9	18	81	6	80	36	17	17	28	1.92
3203456--3203535	40	2.0	40	92	0	133	28	17	13	40	1.88
3203457--3203531	20	3.8	20	76	0	87	29	18	10	41	1.84
3203498--3203629	50	2.6	49	83	2	165	26	17	14	41	1.88
3203707--3204333	167	3.7	168	81	5	669	21	25	12	40	1.88
3203714--3204410	42	16.8	42	71	11	382	21	25	12	40	1.89
3204206--3204321	43	2.8	42	78	8	119	18	28	9	43	1.81
3203706--3204333	334	1.9	335	82	5	804	21	25	12	40	1.88
3204305--3204438	35	3.7	35	73	14	119	18	26	16	38	1.92
3204266--3204441	76	2.3	77	90	2	277	19	26	16	37	1.93
3204266--3204466	76	2.6	77	87	4	257	17	26	14	41	1.88
3204497--3204563	34	1.9	36	90	6	111	19	20	17	41	1.90
3204594--3204619	9	2.9	9	100	0	52	19	11	34	34	1.88
3205172--3205219	19	2.5	19	96	0	87	33	12	16	37	1.86
3207724--3207840	51	2.3	52	83	7	150	31	28	11	28	1.92
3207825--3207899	28	2.7	26	91	8	114	21	33	21	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207882--3208000	51	2.3	51	89	0	193	26	27	15	30	1.96
3207689--3208024	158	2.1	158	82	2	397	26	27	14	30	1.95
3207851--3208099	130	1.9	130	80	4	288	26	25	14	33	1.95
3216880--3216931	20	2.7	20	88	8	72	26	15	17	40	1.89
3217012--3217036	13	1.9	13	100	0	50	36	16	16	32	1.90
3217591--3217635	21	2.1	22	91	4	74	33	31	2	33	1.70
3225678--3225703	13	2.0	13	100	0	52	38	15	15	30	1.88
3225656--3225723	33	2.1	32	91	8	111	32	16	16	35	1.91
3225803--3225827	13	1.9	13	100	0	50	36	16	16	32	1.90
3225786--3225848	33	1.9	32	87	3	90	30	15	20	33	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21