genome.fa.s513.2.7.7.80.10.50.1000.4.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: Scaffold513
Parameters: 2 7 7 80 10 50 1000
Length:  613464

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 487 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)
411600--411721	30	3.9	32	84	8	135	35	13	27	22	1.93
411676--411924	118	2.1	118	95	0	453	37	8	26	28	1.85
411824--412089	88	3.0	88	93	1	444	37	7	26	28	1.83
413304--413347	21	2.0	22	82	4	54	2	2	22	72	1.07
420383--420458	32	2.4	32	84	0	98	34	18	14	32	1.91
427021--427051	9	3.4	9	100	0	62	58	19	0	22	1.40
428710--429305	166	3.6	165	81	6	653	27	12	8	51	1.68
429332--429356	10	2.5	10	100	0	50	36	12	8	44	1.71
434389--434483	32	2.9	32	82	4	111	30	13	12	43	1.82
434449--434523	19	3.9	19	94	1	123	29	16	17	37	1.91
434573--434597	13	1.9	13	100	0	50	36	16	16	32	1.90
434553--434617	33	2.0	32	88	11	96	33	15	18	32	1.92
437512--437717	109	1.9	109	82	4	263	16	20	33	29	1.95
437717--437878	72	2.3	71	81	3	191	16	17	36	29	1.92
437742--437897	71	2.2	71	80	5	172	16	18	36	28	1.93
437996--438190	107	1.8	105	87	2	291	11	28	7	51	1.66
438517--438611	9	10.8	9	80	11	90	13	3	7	75	1.13
438516--438570	25	2.2	24	87	3	74	14	3	7	74	1.17
438517--438605	34	2.5	35	82	10	94	13	3	6	76	1.11
438527--438578	16	3.1	16	84	10	68	13	1	9	75	1.14
438545--438611	28	2.4	28	76	16	52	13	1	8	76	1.09
439143--440003	42	20.5	42	78	5	713	38	16	28	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443951--444087	71	1.9	71	86	5	197	42	11	15	30	1.82
443881--444076	91	2.2	91	79	6	209	41	11	15	31	1.83
444020--444076	20	2.8	20	83	0	78	42	14	14	29	1.84
444875--445367	28	17.2	28	83	5	508	22	18	29	29	1.97
444875--445367	85	5.8	84	83	6	508	22	18	29	29	1.97
446638--446717	10	8.5	10	69	17	64	0	1	15	83	0.70
446632--446717	24	3.6	24	83	7	95	0	1	15	83	0.70
446631--446695	25	2.7	24	90	7	96	0	0	13	86	0.58
446631--446717	14	6.9	13	77	20	80	0	1	14	83	0.70
446631--446718	37	2.4	36	88	9	126	0	1	15	82	0.72
453665--455476	477	3.8	474	85	2	2407	30	18	14	36	1.91
455532--455947	208	2.0	208	88	2	622	36	13	21	28	1.91
455740--458352	476	5.5	474	86	2	3216	36	14	18	30	1.91
459052--467677	475	18.2	476	82	3	10156	35	14	18	30	1.91
459052--467677	949	9.1	951	84	3	9970	35	14	18	30	1.91
467681--489133	476	44.4	476	73	10	11189	31	18	14	35	1.91
471292--471351	18	3.3	18	67	17	52	21	28	8	41	1.82
472024--472065	22	1.9	22	100	0	84	23	14	28	33	1.94
476470--476539	36	1.9	36	85	0	95	24	20	11	44	1.84
478432--478889	243	1.9	241	85	3	625	33	20	12	33	1.90
479122--479176	18	3.0	19	71	10	60	20	21	12	45	1.84
479116--479189	36	2.1	36	92	0	121	22	20	10	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478645--489133	950	10.9	949	91	3	15189	31	18	14	35	1.91
484235--484262	14	2.0	14	100	0	56	28	14	28	28	1.95
485197--485224	14	2.0	14	100	0	56	28	14	28	28	1.95
487759--487830	36	2.0	36	94	0	126	19	22	11	47	1.80
489513--489543	13	2.4	13	94	0	53	35	16	12	35	1.87
493055--493080	13	2.0	13	100	0	52	38	15	15	30	1.88
493037--493100	32	2.0	33	87	3	94	40	17	14	28	1.88
496743--496767	13	1.9	13	100	0	50	36	16	16	32	1.90
498658--498683	13	2.0	13	100	0	52	38	15	15	30	1.88
498640--498703	32	2.0	33	87	3	94	40	17	14	28	1.88
505823--505848	13	2.0	13	100	0	52	38	15	15	30	1.88
505805--505868	32	2.0	33	90	3	103	39	18	14	28	1.90
508067--508111	21	2.1	21	84	8	56	53	4	20	22	1.63
509912--509949	15	2.4	16	86	8	60	50	18	18	13	1.78
512024--512049	13	2.0	13	100	0	52	30	15	15	38	1.88
512170--512215	21	2.2	20	81	11	58	32	19	4	43	1.71
515833--516821	511	1.9	510	87	2	1457	31	18	13	36	1.90
517165--517238	36	2.1	36	89	0	112	22	18	13	44	1.85
517201--519951	476	5.8	475	83	3	3217	31	18	14	35	1.91
518109--519187	159	6.8	158	68	10	450	31	19	14	34	1.91
520003--520719	374	1.9	374	83	4	937	33	18	15	32	1.92
520457--521240	402	2.0	401	86	1	1095	31	17	14	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520859--526039	476	10.9	476	84	2	6311	31	18	14	35	1.91
521287--525808	159	28.5	158	64	13	458	31	18	14	35	1.91
526313--526369	13	3.9	13	76	24	60	35	14	17	33	1.90
526293--526390	32	3.0	32	92	1	151	35	12	16	35	1.86
526326--526388	19	3.7	18	74	24	64	34	12	15	36	1.86
526431--526455	13	1.9	13	100	0	50	32	16	16	36	1.90
526444--526592	52	2.9	50	86	6	199	34	18	16	29	1.94
529647--532605	951	3.1	945	85	3	3924	31	17	14	36	1.90
529647--532603	475	6.2	474	85	3	3692	31	17	14	36	1.90
532634--534367	476	3.6	474	90	0	2500	31	17	14	36	1.90
534628--541884	158	46.1	158	64	14	560	31	18	14	36	1.90
534417--542030	475	16.1	475	83	4	8839	31	18	14	36	1.90
536797--536837	22	1.9	22	95	5	75	26	19	19	34	1.96
538779--542030	476	6.9	475	84	4	4007	30	18	14	36	1.91
539073--540182	159	7.0	156	66	13	408	30	18	15	35	1.92
541805--542285	255	1.9	255	88	3	727	29	17	14	38	1.90
541313--542758	731	2.0	720	90	4	2266	30	17	13	37	1.89
542103--542779	159	4.3	158	69	11	400	31	17	14	37	1.89
550813--551304	30	16.0	30	78	5	401	23	28	15	33	1.94
550813--551304	61	8.0	61	77	5	436	23	28	15	33	1.94
550823--551304	91	5.2	91	81	4	504	23	28	15	32	1.95
551285--552301	34	30.8	33	76	10	875	20	30	11	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551380--551434	27	2.0	27	89	0	83	21	32	14	30	1.93
551683--551742	27	2.2	27	87	0	84	20	31	11	36	1.88
551312--552298	199	5.0	198	86	4	1204	20	30	11	37	1.88
551882--551941	27	2.2	27	93	0	102	21	31	11	35	1.90
552078--552132	27	2.0	27	96	0	101	23	38	12	25	1.90
552298--552915	49	12.7	49	76	7	497	26	25	16	31	1.96
552317--552817	101	5.2	98	79	8	477	26	25	16	31	1.96
552298--552689	150	2.6	150	90	0	604	26	25	16	31	1.96
552609--552777	88	1.9	88	92	0	284	28	24	15	31	1.96
552568--552814	137	1.8	137	85	0	350	27	24	15	32	1.95
553727--553781	20	2.8	20	88	5	76	32	14	12	40	1.84
556564--559550	475	6.3	474	84	3	3797	31	18	14	35	1.91
556577--559550	938	3.1	941	88	2	4173	31	18	14	35	1.91
559556--560892	470	2.8	468	85	4	1711	31	18	14	35	1.91
560462--561321	430	2.0	430	87	3	1259	30	18	14	36	1.91
561327--562121	395	2.0	396	89	1	1229	30	19	14	35	1.92
561723--565005	475	6.9	476	86	2	4229	30	18	14	35	1.91
561856--564462	158	16.5	155	65	15	494	30	18	15	35	1.92
561856--564945	159	19.6	159	66	12	1024	30	18	14	35	1.92
564245--565769	764	2.0	764	87	1	2218	31	18	14	35	1.92
565003--588997	475	50.7	474	85	3	30173	30	19	14	35	1.92
565146--579019	158	87.6	157	65	13	2859	30	19	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579233--583580	159	27.5	156	66	13	1329	30	19	15	35	1.92
583867--587885	159	25.4	157	65	14	1017	30	18	14	35	1.92
585047--587176	158	13.5	157	67	13	608	30	18	15	35	1.92
587921--589356	158	9.1	158	65	10	428	30	18	15	35	1.92
588667--589332	317	2.1	315	82	3	800	30	19	15	33	1.93
594419--594537	42	2.8	42	88	0	175	8	44	2	44	1.47
594443--594528	24	3.8	24	72	17	85	10	44	2	43	1.51
595278--595321	22	1.9	24	90	9	74	4	11	4	79	1.02
596171--600828	158	29.4	156	66	13	1223	29	19	15	35	1.92
596154--601084	475	10.4	475	90	0	7400	29	19	15	35	1.92

Tables:   1   2   3   4   5