genome.fa.s46.2.7.7.80.10.50.1000.4.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  4  of  15  ( 1780 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)
480762--481615	166	5.1	166	74	9	538	48	8	12	30	1.71
484372--484397	13	2.0	13	100	0	52	38	15	15	30	1.88
484421--484476	20	2.8	20	83	0	58	37	12	8	41	1.74
490057--490111	21	2.7	20	91	8	85	36	16	10	36	1.84
490057--490111	20	2.7	21	91	8	87	36	16	10	36	1.84
490057--490123	20	3.3	20	83	10	82	32	16	11	38	1.85
492556--492663	48	2.2	48	86	3	146	36	17	16	29	1.92
499462--499523	29	2.1	29	84	0	79	16	17	25	40	1.90
504134--504190	26	2.3	23	78	16	69	21	21	7	50	1.71
504141--504190	26	1.9	26	91	0	82	22	24	6	48	1.73
512035--512091	20	2.8	20	87	7	80	29	19	10	40	1.85
512117--512207	20	4.6	19	76	5	83	28	12	23	36	1.90
512116--512168	19	2.7	20	85	2	72	30	13	22	33	1.92
512804--512843	14	2.7	16	81	14	50	62	5	7	25	1.42
513848--513916	33	2.1	33	81	5	77	36	11	18	33	1.87
521734--521800	29	2.3	29	86	2	89	8	11	17	61	1.56
521970--522018	21	2.3	21	92	0	80	32	2	24	40	1.67
522643--522696	19	2.8	20	85	2	74	27	18	14	38	1.90
523154--523197	23	1.9	23	86	9	63	29	4	25	40	1.75
525016--525081	34	1.9	34	96	0	123	31	25	16	25	1.96
527692--528268	79	7.3	79	77	6	524	32	13	25	27	1.94
527656--528267	157	3.9	157	85	3	750	32	13	25	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528224--528296	28	2.6	28	86	4	94	28	17	27	26	1.98
529743--529792	19	2.7	19	81	6	59	46	10	22	22	1.81
529917--529976	24	2.5	24	82	10	70	21	0	3	75	0.95
530629--530681	22	2.4	22	100	0	106	32	7	9	50	1.62
530810--530836	13	2.1	13	100	0	54	29	14	14	40	1.86
530820--530876	19	2.9	19	86	2	78	31	17	17	33	1.93
530905--530958	20	2.7	20	88	5	74	33	12	16	37	1.87
534079--534103	13	1.9	13	100	0	50	36	16	16	32	1.90
534060--534129	31	2.2	32	92	2	115	32	14	17	35	1.90
534153--534177	13	1.9	13	100	0	50	32	16	16	36	1.90
534186--534366	52	3.5	52	92	3	310	35	19	17	27	1.94
543128--543200	20	3.7	19	87	7	85	28	15	17	38	1.90
544185--544248	21	3.0	22	66	25	55	31	20	23	25	1.98
544221--545154	52	17.8	52	75	8	743	35	15	24	24	1.94
545403--545467	28	2.4	27	79	7	69	29	23	24	23	1.99
558948--559675	79	9.2	78	73	10	466	33	14	24	27	1.94
558948--559682	157	4.7	158	81	4	745	34	14	23	27	1.94
558943--559675	236	3.1	233	75	11	549	33	14	24	27	1.94
561141--561186	19	2.5	18	86	6	65	47	10	21	19	1.80
561251--561351	8	12.1	8	68	11	51	19	0	5	74	1.02
561986--562067	21	3.7	21	69	20	60	56	2	2	39	1.26
562125--562150	6	4.3	6	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564222--564336	50	2.3	49	86	3	149	24	20	12	43	1.85
566657--566843	79	2.4	79	85	1	241	27	24	13	34	1.93
566796--566896	51	2.0	51	80	3	114	31	25	8	33	1.87
566699--567070	130	2.8	130	80	9	429	29	25	12	32	1.92
566928--567025	51	1.9	51	85	8	137	32	26	9	31	1.88
566699--567073	131	2.9	127	79	10	420	29	24	12	33	1.92
568315--568370	23	2.4	23	96	0	103	41	8	10	39	1.71
569451--569475	13	1.9	13	100	0	50	32	20	16	32	1.94
569660--569699	20	2.0	21	85	5	55	60	22	0	17	1.37
572208--572294	34	2.5	34	86	3	111	32	25	12	29	1.93
572232--572329	34	2.8	35	83	9	121	28	27	12	31	1.93
576791--577025	88	2.6	89	79	9	255	34	20	8	36	1.84
580333--581098	49	15.9	49	81	8	833	31	18	25	24	1.97
580434--581098	92	7.0	92	91	3	979	31	18	25	24	1.97
580334--581098	383	2.0	378	89	3	1178	31	18	25	24	1.97
581130--581480	33	10.8	33	76	14	286	34	12	30	22	1.91
581130--581478	68	5.4	66	78	10	305	34	12	30	22	1.91
581135--581478	101	3.5	99	86	7	435	34	13	30	22	1.92
581458--581540	30	2.8	30	90	0	139	27	20	26	25	1.99
581427--581540	60	1.9	61	85	5	160	28	18	28	24	1.98
590676--590942	52	5.0	52	72	10	173	37	15	22	25	1.93
590806--590942	51	2.7	51	80	5	159	35	18	21	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591016--591341	96	3.4	95	79	5	300	22	17	29	30	1.97
591024--591342	32	10.0	31	78	7	216	22	16	29	31	1.96
591325--591777	30	15.3	29	77	5	336	33	12	28	25	1.92
591328--591447	61	2.0	62	86	1	170	35	10	28	25	1.90
591503--591687	88	2.1	89	83	1	228	35	14	26	23	1.93
591317--591776	59	7.8	60	78	4	380	32	12	28	25	1.93
592983--593031	24	2.0	24	84	7	64	10	8	8	73	1.25
595595--595654	30	2.0	31	81	15	72	35	10	31	23	1.88
597830--598086	97	2.7	97	78	5	236	36	12	22	28	1.91
600735--600760	13	2.0	13	100	0	52	30	15	15	38	1.88
601467--601510	21	2.1	21	83	8	54	25	31	4	38	1.76
603313--603338	13	2.0	13	100	0	52	38	15	15	30	1.88
605368--605398	15	2.1	15	93	0	53	12	22	16	48	1.80
607202--607246	21	2.1	21	84	8	56	22	20	4	53	1.63
611627--611652	13	2.0	13	100	0	52	30	15	15	38	1.88
611773--611818	21	2.2	20	81	11	58	32	19	4	43	1.71
614202--614227	13	2.0	13	100	0	52	38	15	15	30	1.88
614184--614247	32	2.0	33	90	3	103	39	18	14	28	1.90
624562--625073	74	7.0	74	80	5	486	25	22	14	37	1.92
630510--630543	15	2.3	15	100	0	68	64	0	0	35	0.94
630511--630558	15	3.3	15	85	5	62	60	0	0	39	0.97
633454--633507	20	2.8	19	83	5	72	31	14	12	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634670--634695	13	2.0	13	100	0	52	30	15	15	38	1.88
635437--635462	12	2.2	12	100	0	52	50	7	0	42	1.31
637085--637131	21	2.3	21	76	23	55	44	4	17	34	1.68
637252--637290	13	3.0	13	100	0	78	38	15	15	30	1.88
639361--639391	15	2.1	15	93	0	53	12	22	16	48	1.80
641195--641239	21	2.1	21	84	8	56	22	20	4	53	1.63
643464--643489	13	2.0	13	100	0	52	30	15	15	38	1.88
652132--652300	52	3.3	50	75	16	139	31	11	26	30	1.92
652285--652347	28	2.2	28	97	0	117	22	19	34	23	1.96
654255--654292	17	2.2	18	85	4	51	76	0	0	23	0.79
655024--655100	32	2.5	30	77	8	82	48	3	7	40	1.51
655037--655108	32	2.3	32	85	2	92	50	4	5	40	1.45
662480--662504	13	1.9	13	100	0	50	32	16	20	32	1.94
662462--662524	33	1.9	33	87	6	92	36	12	19	31	1.89
663346--663979	49	13.0	49	76	8	571	31	17	25	24	1.97
663742--663908	87	1.9	88	90	1	264	26	19	26	26	1.99
663830--663979	51	3.0	49	84	6	178	30	18	27	24	1.98
663641--663979	187	1.8	189	84	2	468	29	17	26	26	1.98
663971--664174	28	7.1	29	78	11	181	22	19	27	30	1.98
663975--664175	57	3.5	56	80	8	201	21	19	26	31	1.97
663971--664172	85	2.3	86	84	6	241	22	19	26	31	1.98
667974--668033	13	5.1	13	73	22	69	38	13	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667987--668055	20	3.8	20	75	25	89	36	11	17	34	1.86
667974--668053	33	2.4	33	100	0	160	37	12	17	32	1.87
668847--669612	49	15.8	49	80	8	784	31	18	26	24	1.97
669249--669612	43	7.9	43	78	14	370	30	18	25	25	1.98
668994--669612	91	6.5	92	84	7	688	31	18	26	24	1.97
669688--670123	34	13.3	33	80	7	281	36	12	29	22	1.90
669688--669962	34	8.2	34	85	5	346	38	10	30	20	1.86
669942--670122	31	5.8	31	84	4	240	32	15	28	24	1.95
669949--670128	63	2.9	63	85	3	247	32	15	27	23	1.95
671406--671470	11	5.9	11	85	8	71	0	0	13	86	0.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15