genome.fa.s357.2.7.7.80.10.50.1000.4.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: Scaffold357
Parameters: 2 7 7 80 10 50 1000
Length:  802879

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 658 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)
459853--460056	100	2.0	99	84	7	261	45	2	7	44	1.46
460304--460347	20	2.2	20	88	11	65	20	9	6	63	1.46
461356--461403	16	3.0	16	76	8	53	39	0	0	60	0.97
461348--461404	22	2.5	23	85	5	80	40	0	0	59	0.97
461480--461798	173	1.8	173	83	4	428	33	5	8	52	1.54
462284--462324	20	2.0	20	90	9	66	46	0	0	53	1.00
463246--463283	18	2.1	18	90	5	58	34	0	0	65	0.93
463263--463301	20	1.9	21	84	5	53	41	0	0	58	0.98
463971--464012	19	2.3	19	87	4	59	61	2	2	33	1.21
465380--465416	2	18.5	2	100	0	74	51	0	0	48	1.00
466778--466846	32	2.2	32	97	0	129	42	0	24	33	1.55
466958--466997	21	1.9	21	90	10	64	35	0	2	62	1.09
467666--467706	21	2.0	21	90	9	66	39	0	0	60	0.96
467694--467781	39	2.3	38	78	9	106	53	0	1	45	1.07
467975--468014	20	2.0	20	86	13	57	47	0	0	52	1.00
468032--468124	46	2.0	48	81	12	113	50	4	0	45	1.21
468417--468471	23	2.5	22	85	11	69	41	0	0	58	0.98
468414--468482	23	3.0	22	79	14	68	43	0	0	56	0.99
468952--468982	2	15.5	2	100	0	62	51	0	0	48	1.00
470920--470951	2	16.0	2	100	0	64	50	0	0	50	1.00
471251--471291	21	2.0	21	90	9	66	41	0	0	58	0.98
471333--471392	15	4.5	14	73	23	58	53	1	0	45	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472021--472077	25	2.3	25	82	11	64	64	1	1	31	1.13
472283--472326	22	2.0	21	86	4	61	50	4	4	40	1.43
472952--473013	31	2.0	30	84	9	81	37	1	3	58	1.24
473895--473950	21	2.6	22	83	13	73	39	0	0	60	0.97
475457--475491	17	2.2	16	90	10	54	45	2	0	51	1.16
477794--477886	1	93.0	1	76	0	69	0	8	5	86	0.72
477796--477888	31	3.0	30	90	9	143	0	10	5	83	0.79
477794--477887	37	2.6	37	86	9	124	0	9	5	85	0.75
485835--485927	1	93.0	1	76	0	69	0	8	5	86	0.72
485836--485928	37	2.6	36	86	11	122	0	9	5	84	0.75
485837--485929	31	3.0	32	90	9	149	0	10	5	83	0.79
494040--494073	18	1.9	17	88	5	50	61	0	2	35	1.11
494119--494190	8	9.4	8	71	19	55	58	1	0	40	1.07
494119--494187	21	3.4	21	73	18	74	57	1	0	40	1.07
494177--494224	18	2.7	18	83	3	62	50	0	0	50	1.00
495351--495426	21	3.3	22	74	18	66	48	0	0	51	1.00
495363--495415	21	2.5	22	85	11	67	41	0	0	58	0.98
495952--495992	2	20.5	2	100	0	82	51	0	0	48	1.00
497427--497494	32	2.1	32	83	5	84	50	0	2	47	1.16
497651--497791	67	2.0	67	81	8	158	52	2	2	42	1.28
498181--498221	21	2.0	21	90	9	66	39	0	0	60	0.96
498239--498278	18	2.2	18	86	4	53	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498243--498279	19	2.0	18	89	5	56	56	0	0	43	0.99
499711--499750	2	20.0	2	100	0	80	50	0	0	50	1.00
500007--500048	21	2.1	19	86	13	57	59	0	0	40	0.97
500239--500371	31	4.3	31	75	17	102	38	0	0	60	1.08
500744--500782	18	2.2	19	86	9	55	51	0	0	48	1.00
501192--501258	21	3.0	21	79	18	64	43	0	0	56	0.99
501195--501247	21	2.5	22	85	11	67	41	0	0	58	0.98
501939--501983	19	2.4	19	85	3	65	44	4	0	51	1.21
501947--502013	23	2.8	24	77	18	70	44	1	0	53	1.09
501971--502019	23	2.0	25	84	7	66	51	2	0	46	1.12
502547--502599	25	2.0	25	82	10	61	45	3	0	50	1.19
503087--503114	2	14.0	2	100	0	56	50	0	0	50	1.00
504181--504270	42	2.1	42	87	4	126	54	5	6	33	1.50
505563--505599	19	1.9	19	88	0	56	40	0	0	59	0.97
506503--506540	15	2.8	14	88	11	53	10	15	5	68	1.36
507233--507268	2	18.0	2	100	0	72	50	0	0	50	1.00
508163--508196	11	2.9	12	91	4	52	29	0	2	67	1.05
508994--509083	29	3.1	28	80	13	94	61	2	5	31	1.31
509448--509490	3	14.3	3	100	0	86	67	0	0	32	0.91
509808--509870	31	2.0	32	84	9	85	49	1	1	47	1.20
510755--510784	16	1.9	15	93	6	51	40	3	0	56	1.16
511791--511851	31	2.1	31	84	9	83	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511851--511955	50	2.1	51	85	7	144	54	2	0	41	1.21
512055--512093	18	2.2	18	100	0	78	43	10	5	41	1.61
517027--517057	2	15.5	2	93	0	53	48	3	0	48	1.17
518525--518558	2	17.0	2	100	0	68	50	0	0	50	1.00
526415--526482	28	2.4	28	87	0	100	44	11	14	29	1.81
526504--526562	28	2.1	27	84	3	73	45	10	16	27	1.80
526601--526756	82	1.9	82	88	2	233	41	12	14	31	1.83
527451--527505	27	2.0	27	100	0	110	32	32	7	27	1.84
528157--528185	13	2.2	13	100	0	58	27	37	0	34	1.57
534281--534306	5	5.2	5	100	0	52	80	0	0	19	0.71
534472--534521	27	1.9	27	88	8	77	34	8	2	56	1.40
535090--535123	2	17.0	2	100	0	68	50	0	0	50	1.00
536425--536465	22	1.9	21	85	5	55	34	0	4	60	1.18
537464--537497	2	17.0	2	87	0	50	50	2	0	47	1.16
537721--537754	2	17.0	2	100	0	68	50	0	50	0	1.00
538175--538221	16	2.9	15	82	14	58	59	2	2	36	1.21
538291--538335	22	2.1	21	83	4	54	48	4	0	46	1.22
538383--538424	18	2.3	18	83	0	57	71	0	2	26	0.98
538702--538760	25	2.4	24	83	5	82	49	3	1	45	1.28
542410--542446	19	2.0	18	89	5	56	56	0	2	40	1.13
543143--543198	23	2.4	22	80	16	60	19	3	3	73	1.13
547379--547418	19	2.0	20	95	4	73	47	10	0	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547897--547948	20	2.6	20	96	0	95	50	3	11	34	1.57
549994--550058	20	3.3	19	75	18	62	43	0	0	56	0.99
549971--550064	28	3.4	28	78	12	104	39	1	0	59	1.04
551311--551345	16	2.1	17	89	5	54	22	0	5	71	1.07
551919--551973	28	2.0	27	85	3	74	63	3	1	30	1.22
552497--552524	2	14.0	2	100	0	56	50	0	0	50	1.00
552939--553001	2	35.0	2	76	20	68	55	0	0	44	0.99
552939--553001	9	7.0	10	75	21	68	55	0	0	44	0.99
552937--552992	5	10.6	5	96	3	85	57	0	0	42	0.99
554470--554509	3	13.3	3	100	0	80	32	0	0	67	0.91
555186--555237	21	2.4	21	75	15	52	46	5	1	46	1.38
555741--555775	17	2.1	17	94	0	61	37	0	2	60	1.12
556671--556715	5	9.4	5	80	9	58	77	4	17	0	0.92
557621--557652	16	2.0	16	93	0	55	46	0	3	50	1.17
559391--559428	18	2.1	18	90	0	58	57	0	2	39	1.12
561798--561838	19	2.2	19	86	0	55	43	12	26	17	1.84
564828--564863	2	18.0	2	100	0	72	50	0	0	50	1.00
564862--564896	7	5.0	7	89	0	52	48	0	0	51	1.00
565520--565563	2	22.0	2	100	0	88	50	0	0	50	1.00
567087--567116	2	15.5	2	93	6	53	53	0	0	46	1.00
567277--567323	22	2.1	22	84	7	60	10	17	2	70	1.26
567547--567588	22	1.9	22	85	9	59	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567968--568015	25	2.0	24	83	4	60	43	10	2	43	1.50
568780--568813	16	2.1	16	88	0	50	38	0	5	55	1.24
570316--570362	20	2.3	20	82	7	60	46	0	0	53	1.00
570995--571083	5	17.8	5	72	15	60	42	0	1	56	1.06
571050--571112	20	2.9	22	81	13	76	50	0	0	49	1.00
571077--571139	22	2.8	23	83	11	78	55	0	0	44	0.99
571922--571969	25	1.9	25	83	8	62	39	0	0	60	0.97
571866--571951	45	1.9	45	81	9	104	45	0	0	54	0.99
574048--574107	30	2.0	30	84	12	79	48	0	0	51	1.00
574613--574647	2	17.5	2	93	0	61	48	0	0	51	1.00

Tables:   1   2   3   4   5   6