genome.fa.s53.2.7.7.80.10.50.1000.3.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:  4419549

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  3  of  28  ( 3325 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)
378108--378183	12	6.9	11	75	15	52	39	2	48	9	1.49
378098--378216	42	2.8	42	93	0	202	42	1	46	9	1.46
378173--378222	18	2.8	18	81	6	57	44	2	46	8	1.44
380927--381012	20	4.8	20	72	24	82	37	12	15	34	1.85
382380--382422	21	2.0	21	81	0	50	41	0	0	58	0.98
382388--382433	21	2.2	21	88	7	67	34	0	2	63	1.07
388527--388563	18	2.1	18	100	0	74	21	10	16	51	1.74
392111--392135	13	1.9	13	100	0	50	32	16	16	36	1.90
392091--392190	33	3.0	33	92	2	157	30	20	14	36	1.91
392269--392295	13	2.1	13	100	0	54	40	14	14	29	1.86
394048--394136	35	2.5	35	83	7	101	42	10	25	21	1.84
394159--394278	44	2.7	44	83	7	129	37	17	24	20	1.94
394723--394895	91	1.9	91	85	0	238	32	13	24	28	1.93
399398--399813	79	5.3	79	78	5	338	29	23	10	36	1.88
399397--399813	158	2.6	157	83	3	487	29	23	10	36	1.88
400811--400987	72	2.5	72	97	0	327	33	13	15	37	1.86
402010--402076	33	2.0	33	85	5	91	28	13	29	28	1.94
403581--403636	28	2.0	28	100	0	112	32	21	10	35	1.88
407332--407436	52	2.0	52	96	0	192	33	16	11	39	1.84
409886--409941	19	2.9	19	86	2	67	37	14	16	32	1.88
409926--409952	13	2.1	13	100	0	54	40	14	14	29	1.86
415454--415529	12	6.9	11	75	15	52	39	2	48	9	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415444--415562	42	2.8	42	93	0	202	42	1	46	9	1.46
415519--415568	18	2.8	18	81	6	57	44	2	46	8	1.44
427135--427184	21	2.3	21	80	10	57	56	4	18	22	1.58
432745--432787	23	2.0	21	81	9	50	13	9	16	60	1.58
432966--433051	39	2.2	38	84	12	104	36	5	24	33	1.79
433684--433709	13	2.0	13	100	0	52	38	15	15	30	1.88
435082--435156	20	3.7	20	77	8	71	34	8	14	42	1.75
435081--435160	42	1.9	42	86	0	115	35	8	13	42	1.76
438978--439056	20	3.8	20	79	9	70	39	7	13	39	1.74
439101--439154	20	2.6	21	76	2	56	37	14	7	40	1.74
457036--457131	37	2.6	36	82	9	115	4	14	8	72	1.23
468980--469031	20	2.7	20	91	8	81	38	17	15	28	1.90
477290--477329	22	2.0	21	85	14	57	50	0	7	42	1.30
478196--478229	18	1.9	18	88	5	52	23	5	14	55	1.61
481308--481372	33	2.0	32	85	11	87	35	13	18	32	1.90
487531--487582	19	2.7	20	84	3	70	36	15	11	36	1.84
489487--489551	32	2.0	32	88	8	96	27	12	15	44	1.82
489517--489572	20	2.8	20	89	2	78	30	14	16	39	1.88
493346--493483	52	2.7	52	89	2	199	31	16	10	41	1.82
501823--501861	20	2.0	20	89	0	60	46	7	12	33	1.71
504317--504561	78	3.2	77	79	9	266	30	23	11	34	1.90
504317--504584	76	3.5	75	79	9	229	29	23	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505975--506122	30	4.9	29	72	12	102	29	31	9	29	1.89
506126--506349	66	3.5	64	76	10	249	30	30	17	21	1.96
506230--506339	31	3.5	32	82	3	100	32	27	19	20	1.97
506129--506444	33	9.7	31	74	9	220	30	30	18	21	1.97
506514--506815	52	5.8	52	79	2	273	26	22	13	37	1.92
507448--507491	20	2.2	20	87	4	61	43	11	15	29	1.82
507537--507663	51	2.5	52	81	6	136	27	16	14	40	1.88
511283--511333	20	2.5	20	84	6	68	33	11	19	35	1.88
520896--520959	19	3.7	19	72	23	77	42	15	10	31	1.82
522950--522991	22	1.9	22	85	0	57	38	4	33	23	1.76
522957--523033	22	3.6	21	83	3	82	38	2	32	25	1.70
523558--523631	20	3.8	19	78	3	67	33	13	14	37	1.86
523675--523727	13	4.5	13	71	26	55	33	13	16	35	1.88
523659--523727	33	2.1	33	89	5	104	31	13	18	36	1.89
528310--528442	20	6.7	20	92	0	203	31	21	14	32	1.93
528996--529022	13	2.1	13	100	0	54	29	14	14	40	1.86
528977--529041	32	2.0	32	84	3	85	32	15	12	40	1.84
529007--529043	19	1.9	19	94	0	65	35	16	13	35	1.88
537304--537332	12	2.3	13	94	5	51	68	3	0	27	1.05
537360--537418	20	2.8	21	89	7	93	45	5	27	22	1.73
537387--537789	35	11.3	35	91	5	655	42	5	31	20	1.75
537387--537789	71	5.6	71	92	4	677	42	5	31	20	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537461--537523	21	3.3	21	67	28	68	46	4	28	20	1.71
537689--537803	14	9.2	14	66	27	71	38	6	34	20	1.78
537731--537832	48	2.1	48	94	1	177	38	6	35	19	1.79
539197--539387	79	2.4	79	90	0	310	27	26	14	31	1.94
539319--539436	51	2.3	51	95	0	209	29	25	12	32	1.93
539370--539968	79	7.6	79	89	1	896	27	25	14	32	1.94
539240--539517	130	2.1	130	93	0	475	28	25	13	32	1.94
539196--539596	209	1.9	209	93	1	687	27	26	13	32	1.94
539370--539968	238	2.5	236	88	2	905	27	25	14	32	1.94
541086--541255	84	2.0	84	97	0	322	18	21	9	50	1.75
546226--546813	55	10.4	54	83	9	642	26	29	20	23	1.99
546648--547227	202	2.8	202	89	3	840	26	30	20	22	1.98
546827--547015	55	3.5	55	91	2	301	27	28	21	23	1.99
546881--547170	149	1.9	154	86	6	421	26	29	19	24	1.98
547036--547623	61	10.3	55	74	13	401	26	27	19	26	1.99
547307--547622	116	2.7	113	82	10	318	26	25	19	27	1.99
547038--547670	338	1.9	332	85	6	887	25	27	18	27	1.98
547639--547782	41	3.4	41	77	11	141	18	24	13	44	1.85
548213--548241	12	2.3	13	94	5	51	68	3	0	27	1.05
548258--548315	14	3.7	14	72	24	53	36	6	36	20	1.80
548247--548730	35	13.9	35	96	1	893	42	5	31	20	1.75
548503--548596	14	6.7	14	68	26	65	37	6	35	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550124--550553	79	5.4	79	92	1	711	27	26	13	32	1.94
550124--550553	159	2.7	158	93	1	729	27	26	13	32	1.94
550406--550683	130	2.1	130	92	1	459	29	23	13	33	1.93
550327--550759	209	2.1	209	91	2	692	28	24	13	32	1.94
550492--550602	51	2.2	52	95	1	197	29	24	10	35	1.89
550536--550817	79	3.6	79	82	3	345	28	25	13	32	1.94
550248--550889	288	2.2	285	88	4	925	28	25	13	33	1.93
551931--551984	20	2.7	19	88	11	74	33	9	18	38	1.83
561948--562014	37	1.9	35	88	11	102	28	25	13	32	1.93
562537--562613	14	5.7	14	68	25	58	38	7	24	28	1.83
562542--562632	24	3.6	24	72	18	85	39	7	23	29	1.82
562520--562629	53	2.1	54	92	1	186	38	8	22	30	1.84
562533--562658	53	2.3	53	87	8	171	38	10	20	30	1.86
564290--564314	13	1.9	13	100	0	50	32	16	16	36	1.90
567510--567576	37	1.9	34	85	11	91	29	23	11	34	1.91
568047--568071	13	1.9	13	100	0	50	32	20	16	32	1.94
568178--568209	10	3.2	10	90	0	55	40	6	31	21	1.78
568329--568369	21	2.0	21	85	9	57	36	12	14	36	1.84
580647--580673	13	2.1	13	100	0	54	40	14	14	29	1.86
580723--580777	19	2.8	19	83	2	65	34	16	14	34	1.89
580763--580789	13	2.1	13	100	0	54	40	14	14	29	1.86
581350--581395	22	2.1	22	87	0	65	26	32	6	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583263--583304	13	3.2	13	89	0	66	42	14	11	30	1.81
590684--590737	13	4.5	13	71	21	55	35	14	12	37	1.85
590802--590828	13	2.1	13	100	0	54	40	14	14	29	1.86
591063--591176	54	2.1	55	96	1	212	30	13	9	46	1.75
591713--591804	8	10.8	8	75	15	51	83	8	1	6	0.85
591721--591745	10	2.5	10	100	0	50	84	0	0	16	0.63
591711--591789	17	4.5	17	77	16	72	83	7	1	7	0.86
591740--591804	15	4.4	15	77	13	64	84	12	1	1	0.76
591742--591802	28	2.1	29	85	8	81	83	13	1	1	0.79
593054--593661	28	21.1	28	80	6	583	29	30	17	22	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28