genome.fa.s58.2.7.7.80.10.50.1000.4.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: Scaffold58
Parameters: 2 7 7 80 10 50 1000
Length:  1582273

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

This is table  4  of  10  ( 1168 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)
446686--446718	15	2.1	16	88	5	50	60	6	12	21	1.53
450187--450212	13	2.0	13	100	0	52	38	15	15	30	1.88
452428--452472	21	2.1	21	84	8	56	53	4	20	22	1.63
454276--454306	15	2.1	15	93	0	53	48	16	22	12	1.80
456385--456423	13	3.0	13	96	0	69	33	15	12	38	1.85
456533--456578	21	2.2	20	81	11	58	32	19	4	43	1.71
458964--458989	13	2.0	13	100	0	52	38	15	15	30	1.88
460458--460619	89	1.8	88	82	6	211	37	12	22	27	1.91
462952--463049	48	2.0	48	98	0	187	34	16	24	24	1.95
464037--464352	71	4.5	70	80	5	325	36	12	22	28	1.91
466150--466174	13	1.9	13	100	0	50	32	16	16	36	1.90
466127--466192	33	2.0	33	90	0	105	30	16	16	36	1.91
466265--466290	13	2.0	13	100	0	52	38	15	15	30	1.88
466247--466310	33	2.0	32	87	9	94	40	17	14	28	1.88
472483--472520	13	2.9	13	88	11	60	34	18	15	31	1.92
474999--475024	12	2.2	12	100	0	52	30	15	19	34	1.93
474977--475040	29	2.1	28	86	11	83	31	18	15	34	1.93
475113--475138	13	2.0	13	100	0	52	38	15	15	30	1.88
476786--476830	23	2.0	23	83	12	58	40	20	2	37	1.65
477713--477771	30	2.0	30	86	6	84	52	5	0	42	1.23
485559--485612	24	2.2	25	80	3	65	24	7	20	48	1.75
485599--485669	35	2.0	37	83	5	92	22	12	15	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487444--487501	29	2.0	30	82	3	73	50	1	0	48	1.11
487879--487903	2	12.5	2	100	0	50	48	0	0	52	1.00
488549--488595	13	3.8	12	80	13	51	34	2	0	63	1.06
488546--488595	14	3.9	13	80	20	52	36	2	0	62	1.07
488655--488726	5	15.2	5	72	16	55	61	1	0	37	1.05
496716--496771	29	1.9	29	82	7	69	46	0	1	51	1.11
497392--497450	29	2.0	29	93	0	100	54	1	0	44	1.10
497392--497446	13	3.9	13	77	15	56	54	1	0	43	1.10
497583--497650	8	8.5	8	71	11	50	44	0	0	55	0.99
497585--497668	19	4.4	19	71	5	62	44	0	1	54	1.07
497947--497992	24	2.0	23	87	8	67	56	6	0	36	1.25
497961--498005	21	2.1	22	83	4	56	62	6	0	31	1.21
509404--509481	28	2.8	29	81	14	85	16	11	0	71	1.13
520011--520039	2	14.5	2	100	0	58	51	0	0	48	1.00
520952--521011	28	2.1	29	93	3	104	45	1	8	45	1.43
522236--522270	2	17.5	2	100	0	70	48	0	0	51	1.00
523388--523430	3	14.3	3	100	0	86	32	0	0	67	0.91
523922--523969	25	1.9	25	87	8	71	47	0	0	52	1.00
523917--523974	24	2.4	25	80	8	75	48	0	0	51	1.00
524317--524353	16	2.3	16	90	9	58	56	13	0	29	1.37
525356--525394	14	2.9	14	85	11	55	53	2	0	43	1.14
525621--525691	20	3.7	18	68	20	54	49	0	1	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525627--525683	22	2.5	21	78	18	53	47	0	1	50	1.11
529823--529874	20	2.5	21	81	9	63	32	15	15	36	1.89
530323--530370	23	2.1	23	96	0	87	39	10	0	50	1.37
530449--530490	21	1.9	22	85	9	59	52	0	2	45	1.13
531683--531902	109	2.0	108	86	10	306	53	2	3	40	1.31
531896--532047	35	4.3	35	65	23	102	51	1	0	46	1.09
531864--532072	108	1.9	109	86	1	296	55	1	0	42	1.15
531959--532003	24	1.9	23	86	4	63	46	0	0	53	1.00
531956--532015	31	1.9	31	86	6	86	45	0	0	55	0.99
532026--532082	22	2.6	22	74	23	57	63	1	0	35	1.05
532025--532094	20	3.3	19	79	16	68	65	1	1	31	1.10
532756--532788	17	1.9	17	93	0	57	33	9	9	48	1.66
533012--533050	16	2.3	18	86	8	55	71	5	0	23	1.05
536362--536461	50	2.0	50	86	9	141	31	12	9	48	1.71
536504--536911	84	4.7	86	83	5	439	35	15	6	41	1.73
536504--536931	181	2.5	170	81	5	455	35	15	6	41	1.74
537298--537397	38	2.6	38	77	3	103	44	9	2	45	1.47
537646--537675	15	2.0	15	93	0	51	36	0	0	63	0.95
543518--543574	17	3.2	17	76	9	60	66	1	3	28	1.18
543517--543572	19	3.1	18	77	10	60	67	1	3	26	1.16
543517--543651	29	4.8	28	72	17	84	60	2	2	34	1.24
543590--543631	20	2.0	21	86	4	59	54	4	0	40	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544173--544220	26	1.9	24	83	8	60	43	4	0	52	1.20
544545--544581	18	2.1	18	89	0	56	40	2	2	54	1.29
546767--546808	22	1.9	22	95	0	75	47	21	0	30	1.51
552996--553038	9	4.6	9	81	18	52	32	2	0	65	1.06
553804--553840	2	18.5	2	100	0	74	0	0	48	51	1.00
556393--556442	21	2.4	21	89	0	73	20	8	20	52	1.71
558291--558360	37	1.9	37	88	11	110	30	2	17	50	1.60
558700--558762	32	2.0	32	84	6	83	46	3	4	46	1.40
558751--558800	22	2.2	23	78	3	57	46	6	4	44	1.47
558817--558855	18	2.4	17	87	12	55	66	2	0	30	1.05
559332--559368	19	1.9	19	88	0	56	54	13	0	32	1.40
559625--559664	8	4.9	8	87	3	53	62	0	0	37	0.95
567459--567525	21	3.2	21	82	2	73	34	7	10	47	1.66
567498--567535	20	1.9	20	88	0	58	23	0	18	57	1.40
569009--569057	19	2.6	19	93	3	82	30	12	18	38	1.87
571460--571692	51	4.6	51	85	4	317	30	24	11	34	1.91
571629--572007	79	4.8	79	90	0	560	27	25	14	31	1.95
571864--572228	130	2.8	130	83	4	407	29	24	12	33	1.92
571943--572061	51	2.3	51	86	2	168	31	26	10	31	1.89
584555--584579	13	1.9	13	100	0	50	88	8	4	0	0.64
584556--584604	7	6.4	8	77	15	50	87	8	4	0	0.65
584556--584604	15	3.2	15	85	8	64	87	8	4	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584556--584604	16	3.1	16	85	11	66	87	8	4	0	0.65
584555--584598	12	3.8	12	85	14	56	86	11	2	0	0.66
585588--585935	55	6.3	55	92	2	522	29	29	20	20	1.98
586566--586633	19	3.9	19	78	21	85	35	11	14	38	1.83
586587--586611	13	1.9	13	100	0	50	36	16	16	32	1.90
586568--586630	32	2.0	32	96	0	117	34	12	15	36	1.86
586673--586698	13	2.0	13	100	0	52	30	15	15	38	1.88
586653--586719	33	2.0	33	88	0	98	25	14	16	43	1.86
589069--589432	52	6.9	51	70	13	220	31	25	11	31	1.91
589179--589251	27	2.6	28	81	12	89	24	32	21	20	1.97
589272--589452	52	3.5	49	76	9	173	32	24	9	33	1.88
589064--589565	263	1.9	263	88	4	753	29	27	12	30	1.93
589468--589672	79	2.6	79	81	5	227	24	32	16	26	1.96
590820--590857	20	1.9	20	100	0	76	23	15	44	15	1.85
594950--595012	15	4.3	14	78	15	65	85	9	3	1	0.77
594964--595005	5	7.3	6	82	17	54	88	11	0	0	0.53
594967--595005	11	3.2	12	89	10	62	87	12	0	0	0.55
594950--595001	18	2.7	18	85	11	68	86	9	1	1	0.72
594950--594996	13	3.5	13	88	5	67	87	8	2	2	0.71
596016--596810	55	13.9	55	84	7	809	26	26	20	25	1.99
596026--596111	29	3.1	29	64	21	74	26	29	19	24	1.99
596181--596266	27	3.1	27	63	3	73	26	23	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596153--596294	28	5.1	28	61	3	72	26	26	20	26	1.99
596832--597245	55	7.3	55	83	5	472	27	26	20	25	1.99
597349--597442	40	2.3	40	78	7	100	22	28	11	37	1.89
597338--597437	42	2.4	42	78	8	107	20	29	10	41	1.84
598035--598124	19	5.1	18	71	22	75	35	12	15	36	1.85
598080--598104	13	1.9	13	100	0	50	24	16	16	44	1.86
598060--598141	32	2.6	32	86	1	121	32	13	17	36	1.88
600564--600799	51	4.6	51	84	1	276	30	23	11	34	1.91
600731--601105	79	4.8	79	87	5	514	27	26	14	30	1.95
601041--601160	51	2.4	51	82	2	152	30	27	13	28	1.94

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