genome.fa.s118.2.7.7.80.10.50.1000.4.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: Scaffold118
Parameters: 2 7 7 80 10 50 1000
Length:  1286304

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 935 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)
535297--535372	21	3.7	21	80	3	100	42	11	17	28	1.84
535279--535372	41	2.3	41	98	0	179	39	12	18	29	1.88
535411--535436	13	2.0	13	100	0	52	38	15	15	30	1.88
538040--538229	97	2.0	96	84	3	247	38	12	22	27	1.89
540417--540489	20	3.7	19	85	7	76	28	17	15	38	1.90
546913--546967	20	2.8	20	80	8	67	34	14	10	40	1.81
550370--550396	13	2.1	13	100	0	54	29	14	14	40	1.86
551877--551949	33	2.2	33	95	0	128	23	24	19	32	1.97
554028--554084	21	2.8	20	83	2	69	42	14	14	29	1.84
554172--554210	20	1.9	21	89	5	62	33	20	7	38	1.81
555454--555524	20	3.6	19	77	7	70	39	16	14	29	1.88
555494--555630	53	2.6	53	94	3	231	36	17	18	27	1.93
555675--555726	21	2.4	22	90	6	88	25	23	13	38	1.91
555662--555799	52	2.6	54	75	16	153	28	24	9	36	1.87
555790--555826	13	2.8	13	91	0	65	32	16	16	35	1.91
560255--560286	9	3.6	9	91	0	55	56	0	21	21	1.43
561191--561298	52	2.1	52	82	3	128	38	13	23	24	1.91
561304--561405	52	2.0	52	84	0	132	39	14	19	26	1.90
561179--561390	113	1.9	113	85	2	291	41	13	22	22	1.89
561515--561641	33	3.8	33	87	2	157	22	19	32	25	1.97
561650--562117	32	14.5	32	81	5	460	20	17	31	30	1.96
561538--561760	119	1.9	119	85	1	313	21	18	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561650--562117	65	7.2	65	82	4	520	20	17	31	30	1.96
561647--562117	129	3.6	129	82	5	533	20	17	31	30	1.96
562152--562209	28	2.1	28	84	9	75	27	10	34	27	1.89
562219--562420	90	2.2	90	82	3	228	30	16	27	25	1.96
562234--562420	60	3.1	59	83	4	205	30	15	28	25	1.96
562219--562428	30	7.0	29	78	6	186	31	15	27	25	1.96
563534--563592	20	2.9	20	89	2	91	27	13	11	47	1.78
563574--563603	13	2.3	13	100	0	60	30	16	13	40	1.87
565977--566084	51	2.2	49	81	6	130	31	24	7	37	1.83
566004--566116	51	2.2	50	84	6	138	30	26	10	32	1.90
566052--566326	79	3.5	78	86	4	358	27	25	14	32	1.95
566287--566402	51	2.3	51	84	0	160	31	26	10	31	1.90
566385--566461	28	2.8	28	89	0	109	22	31	20	25	1.98
566258--566590	157	2.1	157	83	2	409	27	27	14	31	1.95
566445--566561	50	2.3	51	88	1	173	28	27	13	30	1.94
566208--566725	287	1.8	286	81	5	661	27	25	13	33	1.93
566413--566748	130	2.6	129	77	8	358	27	25	12	33	1.93
569316--569378	20	3.2	20	88	0	99	44	9	12	33	1.75
576824--576873	21	2.4	21	83	9	59	52	0	16	32	1.44
576831--576873	21	2.0	22	86	4	61	55	0	16	27	1.41
576997--577058	20	3.5	20	67	28	66	43	11	14	30	1.80
576980--577056	33	2.3	33	97	0	145	40	10	15	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581586--581615	3	10.0	3	92	0	51	33	30	0	36	1.58
583200--583253	20	2.7	20	88	11	76	35	18	14	31	1.91
583302--583328	13	2.1	13	100	0	54	48	14	7	29	1.71
585936--586000	20	3.6	20	73	26	81	30	16	15	36	1.90
585955--586013	13	5.0	13	72	19	58	30	20	15	33	1.93
585936--586016	33	2.5	33	100	0	162	32	17	14	35	1.90
585936--586034	33	3.0	33	91	5	130	33	17	15	34	1.91
588302--588341	21	2.0	21	90	5	64	47	0	20	32	1.50
593990--594045	19	2.8	20	86	5	78	35	17	12	33	1.88
594886--594938	20	2.6	21	76	8	56	41	16	13	28	1.86
603040--603084	22	2.0	22	87	8	65	33	2	28	35	1.70
603743--603796	21	2.7	21	83	13	69	37	18	14	29	1.91
609542--609575	10	3.3	10	88	8	50	47	8	0	44	1.34
612221--612714	28	17.1	28	84	7	562	24	18	29	28	1.98
612227--612714	57	8.4	57	84	6	513	23	18	29	28	1.98
612220--612714	144	3.4	142	87	3	670	24	18	29	28	1.98
627965--628005	20	2.1	19	90	4	64	82	17	0	0	0.66
627965--628005	18	2.4	17	88	12	57	82	17	0	0	0.66
629353--630245	49	18.9	49	80	9	948	24	26	18	31	1.97
629565--630466	92	9.8	92	81	11	933	24	26	17	31	1.97
629401--630466	233	4.6	232	87	5	1402	24	26	17	31	1.97
630215--630277	32	2.0	32	96	0	117	23	26	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630166--630326	81	2.0	81	98	0	313	22	26	17	32	1.96
630247--630517	49	5.4	49	90	1	389	24	26	16	31	1.97
630101--630424	179	1.8	179	94	1	578	23	26	17	32	1.97
630117--630375	130	2.0	130	95	1	466	23	26	17	32	1.96
630560--630643	19	4.8	18	73	19	79	35	13	15	35	1.86
630690--630794	52	2.0	52	87	3	149	33	20	17	28	1.95
634023--634109	9	9.4	9	75	14	70	2	4	9	83	0.86
634023--634107	13	6.4	13	75	20	70	2	4	9	83	0.87
634023--634109	35	2.6	31	85	14	104	2	4	9	83	0.86
636184--636256	20	3.6	20	81	3	101	35	13	19	31	1.91
636202--636277	21	3.7	21	80	3	100	42	11	17	28	1.84
636184--636277	41	2.3	41	98	0	179	39	12	18	29	1.88
640403--640433	15	2.1	15	93	0	53	48	16	22	12	1.80
642300--642338	13	3.0	13	96	0	69	30	17	15	35	1.91
644131--644226	32	2.9	34	93	6	178	25	3	25	46	1.67
644847--644919	20	3.6	20	81	3	101	35	13	19	31	1.91
644865--644940	21	3.7	21	80	3	100	42	11	17	28	1.84
644847--644940	41	2.3	41	98	0	179	39	12	18	29	1.88
653671--653715	22	2.0	23	86	4	65	66	11	11	11	1.45
657945--657999	20	2.8	20	80	0	65	38	16	14	30	1.89
658255--658395	72	2.0	72	92	2	239	26	18	33	21	1.97
658635--658692	13	4.0	13	74	23	53	34	15	15	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658615--658691	32	2.4	32	93	2	129	35	14	16	33	1.89
661112--661349	51	4.6	49	81	9	219	30	25	11	32	1.91
661135--661349	102	2.1	103	89	4	328	30	26	10	32	1.90
661334--661401	27	2.5	26	86	11	84	25	30	19	25	1.98
661359--661562	79	2.6	79	89	0	318	25	26	17	30	1.97
661518--661588	28	2.5	28	93	4	117	19	30	21	28	1.97
661437--661669	107	2.2	107	82	4	274	26	26	15	31	1.96
661546--661721	79	2.2	79	85	0	235	26	25	15	31	1.96
661282--661721	186	2.4	185	80	9	477	27	26	15	31	1.95
663468--663494	13	2.1	13	100	0	54	40	14	14	29	1.86
663823--663851	2	14.5	2	100	0	58	51	0	0	48	1.00
664160--664205	24	2.0	23	82	4	56	34	0	0	65	0.93
664292--664316	12	2.1	12	100	0	50	48	0	0	52	1.00
664968--664995	6	4.7	6	100	0	56	17	14	50	17	1.79
664968--665006	18	2.2	17	86	4	51	23	12	46	17	1.83
669265--669311	24	1.9	25	83	12	62	63	6	8	21	1.44
669264--669317	25	2.2	23	78	18	56	64	5	9	20	1.42
670063--670135	20	3.6	20	81	3	101	35	13	19	31	1.91
670081--670156	21	3.7	21	80	3	100	42	11	17	28	1.84
670063--670156	41	2.3	41	98	0	179	39	12	18	29	1.88
670195--670220	13	2.0	13	100	0	52	38	15	15	30	1.88
674274--674312	15	2.6	15	91	0	60	51	15	20	12	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676318--676396	20	3.7	21	75	15	72	26	13	15	44	1.84
676383--676421	13	3.0	13	96	0	69	30	17	15	35	1.91
678873--678945	20	3.6	20	81	3	101	35	13	19	31	1.91
678891--678966	21	3.7	21	80	3	100	42	11	17	28	1.84
678873--678966	41	2.3	41	98	0	179	39	12	18	29	1.88
679005--679030	13	2.0	13	100	0	52	38	15	15	30	1.88
679994--680030	16	2.3	16	95	0	65	24	5	16	54	1.63
681541--681587	16	3.1	16	79	17	55	70	10	14	4	1.31
682985--683598	28	22.0	28	84	7	759	25	30	14	29	1.95
683263--683330	35	1.9	36	96	3	129	23	32	17	26	1.97

Tables:   1   2   3   4   5   6   7   8