genome.fa.s98.2.7.7.80.10.50.1000.2.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  660679

Tables:   1   2   3   

This is table  2  of  3  ( 248 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)
318104--318147	22	2.0	22	95	0	79	31	20	13	34	1.92
323348--323386	18	2.2	18	90	0	60	48	10	0	41	1.37
324499--324577	31	2.5	31	93	0	131	27	24	17	30	1.97
324601--324692	42	2.2	42	90	0	139	34	22	14	28	1.93
324837--324959	26	4.8	26	87	1	169	30	21	21	26	1.98
325736--325834	27	3.7	27	84	10	82	24	24	21	30	1.99
325751--325834	27	3.1	27	87	3	116	21	26	21	30	1.98
325873--326204	27	12.3	27	75	8	158	29	10	20	39	1.85
325873--326204	54	6.1	54	72	10	212	29	10	20	39	1.85
326182--326311	27	4.9	27	91	1	190	41	8	21	28	1.82
326156--326303	80	1.9	80	82	0	188	40	8	19	31	1.81
326182--326311	53	2.4	54	90	1	199	41	8	21	28	1.82
326404--326436	11	3.1	11	82	8	50	15	39	18	27	1.90
326404--326445	21	2.0	21	85	0	57	16	38	21	23	1.93
327787--327840	21	2.5	21	82	8	56	31	24	18	25	1.97
336081--336184	40	2.6	39	81	3	109	16	32	16	34	1.91
339857--340110	6	41.8	6	74	15	211	48	14	16	20	1.80
339859--340110	61	4.2	60	84	6	296	48	14	16	20	1.80
339850--340110	91	2.9	91	85	5	343	49	14	16	20	1.80
340229--340293	27	2.4	27	85	7	80	36	21	23	18	1.95
340252--340309	27	2.1	27	81	6	64	36	27	18	17	1.94
340466--340524	22	2.7	22	81	0	64	32	22	25	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340612--340694	27	3.1	26	87	5	112	37	21	21	19	1.94
340893--341088	27	7.3	27	84	0	239	26	19	18	35	1.95
340895--341088	81	2.4	81	86	1	264	26	19	18	36	1.94
341093--341618	27	19.3	27	81	6	567	41	9	21	27	1.84
341200--341293	33	3.0	33	89	8	137	42	11	21	24	1.86
353600--353642	21	2.1	20	82	4	50	44	2	18	34	1.63
354292--354406	51	2.2	54	81	7	130	22	23	15	38	1.92
354389--354429	12	3.4	12	89	0	55	21	21	12	43	1.85
354376--354429	18	3.0	18	78	5	56	20	24	12	42	1.87
354565--354626	18	3.5	17	80	8	61	37	12	14	35	1.85
356405--356509	53	2.0	53	84	0	138	20	24	18	36	1.95
360521--360630	31	3.2	31	71	24	103	45	14	0	39	1.51
360483--360630	73	2.0	73	100	0	296	44	12	1	41	1.50
367869--367902	16	2.1	16	100	0	68	41	17	26	14	1.88
370722--370755	6	5.7	6	96	0	50	58	32	8	0	1.29
374851--374914	25	2.8	23	76	19	64	56	0	0	43	0.99
376431--376501	36	2.0	36	100	0	142	42	14	19	23	1.88
378956--378983	11	2.5	11	100	0	56	17	10	28	42	1.83
380744--380782	20	2.0	20	84	0	51	43	12	2	41	1.56
380838--380907	16	4.4	16	94	0	95	32	0	34	32	1.58
380886--380995	45	2.6	45	80	9	133	34	5	28	31	1.80
381141--381175	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381156--381475	61	5.3	61	68	17	229	49	5	2	42	1.39
381240--381291	15	3.6	15	80	12	56	53	1	0	44	1.11
381127--381536	120	3.4	120	95	0	714	49	4	2	43	1.36
381575--381659	40	2.2	40	91	2	136	60	12	5	21	1.54
387813--387955	41	3.5	41	89	0	198	26	20	25	26	1.99
387811--387996	41	4.6	40	82	2	194	24	20	26	27	1.99
387797--387996	81	2.5	78	80	8	222	24	21	27	27	1.99
394168--394207	14	2.9	14	84	0	53	32	7	17	42	1.77
394191--394229	20	2.0	20	89	0	60	28	10	12	48	1.74
397964--398146	41	4.5	41	83	6	214	24	21	27	26	1.99
397962--398147	81	2.3	81	85	5	234	23	20	27	27	1.99
403346--403402	29	2.0	28	83	12	73	33	5	26	35	1.79
403831--403971	42	3.3	43	77	8	135	26	19	25	28	1.98
403811--403977	43	3.9	43	75	12	144	26	17	25	29	1.98
412175--412333	27	5.9	27	81	11	175	33	20	25	20	1.97
412193--412336	54	2.7	54	93	2	236	34	22	25	18	1.96
412722--412752	8	3.9	8	91	0	53	3	25	25	45	1.69
420148--420306	27	5.9	26	84	10	178	34	20	24	20	1.96
420166--420309	54	2.7	54	91	2	227	34	22	24	18	1.96
422840--423055	46	4.7	46	77	9	174	26	19	30	23	1.98
422887--423054	92	1.8	90	83	5	221	26	18	30	25	1.98
430134--430190	29	2.0	28	83	12	73	33	5	26	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431222--431247	13	2.0	13	100	0	52	23	15	30	30	1.95
437688--437718	16	1.9	16	100	0	62	41	25	6	25	1.79
437875--437953	30	2.7	30	88	2	124	27	18	10	43	1.83
437934--438013	30	2.7	30	86	0	115	18	26	10	45	1.81
437991--438125	60	2.2	60	80	5	148	26	23	12	37	1.91
438143--438212	29	2.4	29	79	9	88	24	27	11	37	1.89
437994--438212	30	7.4	29	72	9	95	25	23	12	38	1.90
440902--440932	13	2.4	13	100	0	62	54	0	12	32	1.38
448418--448501	44	1.9	44	92	0	141	33	29	16	20	1.95
452186--452349	76	2.2	76	83	4	197	52	12	10	24	1.70
461267--461473	56	3.7	56	90	0	324	33	22	15	28	1.95
465684--465754	29	2.4	29	86	4	90	26	29	15	28	1.96
472448--472507	28	2.1	28	84	0	75	33	31	6	28	1.83
472491--472624	40	3.3	40	84	2	162	33	26	16	23	1.95
478615--478657	22	2.0	22	90	9	70	20	13	27	37	1.91
483028--483163	40	3.4	40	84	2	166	33	25	18	22	1.96
484380--484430	25	2.0	25	96	0	93	25	7	21	45	1.79
485812--485964	43	3.6	43	83	5	166	22	19	17	40	1.91
491582--491700	39	3.1	39	93	0	202	27	23	21	26	1.99
496483--496800	72	4.4	71	88	4	460	22	5	16	56	1.59
503731--503786	26	2.2	26	86	0	76	32	25	8	33	1.87
503742--503807	26	2.5	26	92	0	105	30	30	10	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503751--503807	13	4.4	13	75	0	60	31	29	10	28	1.90
508432--508560	45	2.9	45	94	0	213	19	20	30	29	1.97
509080--509112	16	1.9	18	88	11	52	18	12	18	51	1.76
520046--520269	39	5.7	39	89	0	331	23	20	24	31	1.98
528599--528749	39	3.9	39	87	0	221	27	23	20	28	1.99
536773--536930	39	4.1	39	88	0	235	26	24	22	25	2.00
543342--543515	94	1.9	92	85	7	244	25	29	18	25	1.98
548253--548310	6	9.3	6	81	7	62	18	1	3	75	1.03
548253--548310	12	4.7	12	83	8	71	18	1	3	75	1.03
548253--548310	18	3.1	18	87	5	80	18	1	3	75	1.03
548267--548323	25	2.2	25	87	3	78	19	1	3	75	1.04
552871--552911	22	2.0	20	85	9	55	56	7	2	34	1.40
556505--556560	20	2.8	20	97	0	103	26	28	30	14	1.95
556505--556600	20	4.8	21	80	10	94	25	26	31	17	1.97
557997--558029	13	2.4	14	90	5	50	21	6	0	72	1.05
566416--566589	47	3.7	46	76	13	176	27	17	30	24	1.97
566416--566589	94	1.8	95	86	3	253	27	17	30	24	1.97
581233--581285	20	2.7	20	93	0	97	20	33	30	15	1.93
587650--587699	10	5.0	10	85	0	64	16	16	2	66	1.35
587650--587707	20	2.9	20	84	0	71	18	13	1	65	1.35
594001--594127	62	2.0	64	89	3	195	48	5	19	26	1.71
594461--594666	110	1.9	110	82	4	263	32	15	15	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596944--596991	19	2.5	18	77	12	51	4	25	2	68	1.18
607205--607240	17	2.1	17	100	0	72	30	0	11	58	1.33
607701--607750	26	2.0	25	88	7	75	40	2	0	58	1.10
609728--609760	16	2.0	17	94	5	59	51	0	0	48	1.00
609950--609992	18	2.4	18	81	14	54	39	0	2	58	1.11
619359--619415	18	3.1	19	82	10	64	40	0	5	54	1.23
619359--619414	19	3.1	18	84	7	60	41	0	5	53	1.24
619494--619525	9	3.6	9	91	0	55	31	0	12	56	1.37
623486--623605	56	2.1	56	93	0	213	45	7	23	24	1.78
624735--625031	80	3.7	79	85	5	352	25	21	27	25	1.99

Tables:   1   2   3