genome.fa.s425.2.7.7.80.10.50.1000.4.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: Scaffold425
Parameters: 2 7 7 80 10 50 1000
Length:  711097

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 531 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)
491467--491547	19	4.4	19	74	16	80	51	0	2	45	1.14
491462--491568	35	2.9	37	85	12	141	51	0	1	46	1.11
491474--491594	35	3.5	35	86	6	158	55	0	0	42	1.11
492612--492636	11	2.3	11	100	0	50	64	0	0	36	0.94
493618--493807	78	2.4	80	85	6	244	35	8	5	51	1.55
493620--493812	81	2.4	78	84	4	244	35	8	5	50	1.56
497778--497814	3	12.3	3	88	0	56	32	2	2	62	1.23
497920--497944	2	12.5	2	100	0	50	0	48	0	52	1.00
498918--498956	17	2.3	17	82	13	53	56	0	0	43	0.99
498910--499027	43	2.7	44	76	13	111	55	0	0	44	0.99
499015--499123	17	6.6	16	72	18	64	64	0	2	32	1.14
499041--499075	11	2.8	13	83	16	56	62	0	0	37	0.95
499032--499137	38	2.8	37	80	8	106	63	0	0	34	1.08
498999--499113	11	11.1	11	69	19	52	64	0	2	32	1.13
498986--499164	73	2.5	73	80	6	177	63	1	1	34	1.12
499106--499161	19	2.9	19	89	7	78	60	1	0	37	1.07
499378--499436	23	2.6	22	75	15	66	66	5	5	23	1.32
499960--500023	25	2.7	24	72	18	62	62	3	4	29	1.31
500073--500104	4	8.0	4	100	0	64	0	25	0	75	0.81
500452--500515	25	2.7	24	72	18	62	64	1	3	31	1.19
501342--501418	37	2.1	37	85	4	102	66	3	2	27	1.22
501374--501418	22	2.0	22	91	8	74	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501377--501418	11	3.9	11	85	14	61	71	0	0	28	0.86
501501--501615	24	5.0	23	72	14	69	65	4	0	29	1.18
501559--501584	11	2.4	11	100	0	52	69	7	0	23	1.14
501859--501913	26	2.1	27	82	3	67	58	0	1	40	1.09
501897--501944	15	3.1	15	82	8	60	54	0	2	43	1.12
501899--501944	16	2.9	15	81	9	56	54	0	2	43	1.12
501958--501984	2	13.5	2	100	0	54	51	0	0	48	1.00
502984--503017	14	2.3	15	90	5	52	41	0	0	58	0.98
502987--503030	21	2.1	21	83	8	54	38	0	0	61	0.96
503414--503498	29	2.9	29	79	11	95	51	1	0	47	1.08
505629--505772	42	3.4	42	92	0	234	27	19	14	38	1.90
508098--508229	42	3.1	42	91	0	219	24	15	14	45	1.84
508098--508248	42	3.6	43	89	4	202	25	17	15	41	1.88
508098--508254	84	1.8	84	86	5	226	26	17	14	41	1.88
509335--509448	25	4.6	25	77	16	105	57	0	0	42	1.05
509368--509419	16	3.2	16	80	2	50	55	0	0	44	0.99
509381--509441	5	12.2	5	75	18	56	60	0	0	39	0.97
509380--509435	9	6.5	8	77	18	51	58	0	0	41	0.98
509355--509441	23	3.9	23	73	14	83	58	0	0	41	0.98
509418--509461	20	2.2	19	88	8	61	56	0	0	43	0.99
510932--511001	38	1.9	35	85	8	95	54	0	1	44	1.09
512564--512597	13	2.5	13	90	4	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512574--512616	23	1.9	23	90	4	70	46	0	0	53	1.00
512570--512616	16	3.3	14	77	13	51	48	0	0	51	1.00
514347--514397	17	3.1	17	70	30	56	50	3	0	45	1.20
514331--514412	32	2.6	32	94	1	139	52	3	0	43	1.18
514346--514399	16	3.4	16	72	27	60	48	3	0	48	1.19
515910--515947	13	3.2	12	85	7	51	50	0	0	50	1.00
515914--516001	18	4.8	17	72	19	63	43	0	1	55	1.07
515925--515996	28	2.6	26	81	14	74	40	0	1	58	1.07
515914--516001	35	2.4	37	83	9	108	43	0	1	55	1.07
516979--517018	16	2.4	18	80	19	52	15	5	0	80	0.88
522345--522398	21	2.6	21	85	5	65	38	0	0	61	0.96
522450--522494	22	2.0	22	91	0	72	42	0	0	57	0.98
523140--523176	3	12.3	3	94	0	65	67	2	0	29	1.04
536025--536051	2	13.5	2	100	0	54	48	0	0	51	1.00
536273--536297	2	12.5	2	100	0	50	48	0	0	52	1.00
536791--536824	17	1.9	18	88	5	52	61	0	5	32	1.20
537144--537172	2	14.5	2	100	0	58	48	0	0	51	1.00
537461--537487	14	1.9	14	100	0	54	51	0	0	48	1.00
537715--537750	2	18.0	2	91	0	54	52	2	0	44	1.15
538948--538992	23	1.9	24	81	4	56	48	2	0	48	1.13
539073--539105	2	16.5	2	100	0	66	48	0	51	0	1.00
539250--539280	2	15.5	2	100	0	62	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540823--540865	2	21.5	2	100	0	86	51	0	0	48	1.00
543536--543576	20	2.0	21	85	4	57	43	0	0	56	0.99
544678--544714	2	18.5	2	100	0	74	48	0	0	51	1.00
545866--545893	2	14.0	2	100	0	56	50	0	0	50	1.00
546033--546071	19	2.1	18	86	13	53	61	0	0	38	0.96
548835--548940	43	2.4	45	75	19	107	43	0	1	54	1.11
549567--549606	21	1.9	21	84	0	53	25	7	5	62	1.42
549815--549850	14	2.6	14	95	0	63	50	8	0	41	1.33
550037--550084	22	2.1	24	85	14	66	41	8	6	43	1.60
556248--556287	18	2.1	20	86	9	57	60	0	5	35	1.19
557737--557767	2	15.5	2	100	0	62	48	0	0	51	1.00
560907--560957	23	2.2	23	89	0	75	37	9	1	50	1.47
564808--564849	14	2.9	14	85	3	57	57	0	0	42	0.99
565816--565841	5	5.2	5	100	0	52	80	0	0	19	0.71
566203--566229	3	9.0	3	100	0	54	33	0	0	66	0.92
567022--567066	2	22.5	2	100	0	90	51	0	0	48	1.00
570083--570132	11	4.3	12	77	10	59	32	2	0	66	1.03
570086--570130	23	2.0	23	82	8	56	28	2	0	68	1.01
570088--570138	18	3.0	17	74	5	50	35	1	0	62	1.06
570843--570874	2	16.0	2	100	0	64	50	0	0	50	1.00
571941--571971	2	15.5	2	93	0	53	54	0	0	45	0.99
581844--581890	22	2.1	23	84	11	62	46	2	8	42	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585119--585189	27	2.6	27	80	6	81	50	0	1	47	1.09
585100--585179	20	3.9	20	73	13	65	46	0	1	52	1.08
585986--586037	19	2.6	21	82	17	74	57	0	0	42	0.98
589245--589288	22	1.9	23	81	9	54	38	2	2	56	1.24
589957--589988	17	1.9	16	93	6	55	43	0	0	56	0.99
592803--592886	41	2.0	42	86	6	118	23	15	25	35	1.94
592861--592965	52	2.0	52	90	3	167	25	14	11	48	1.77
595863--595917	27	2.0	29	85	7	78	32	0	1	65	1.03
595912--595972	23	2.7	24	75	12	58	57	0	0	42	0.98
598288--598328	19	2.2	19	83	12	50	43	0	2	53	1.13
599815--599857	21	2.0	21	100	0	86	25	27	13	32	1.94
609743--609770	2	14.0	2	100	0	56	50	0	50	0	1.00
614734--614778	15	3.0	15	96	0	81	35	6	37	20	1.79
618054--618080	2	13.5	2	100	0	54	48	0	0	51	1.00
618917--618963	3	15.7	3	100	0	94	31	0	0	68	0.90
621840--621910	36	2.0	35	89	8	108	54	0	0	45	0.99
621875--621930	29	1.9	29	82	13	71	55	0	1	42	1.10
621860--621932	36	2.0	35	82	15	87	56	0	1	42	1.08
622220--622246	2	13.5	2	100	0	54	48	0	0	51	1.00
625482--625536	22	2.4	25	83	16	68	7	12	9	70	1.32
627884--627936	20	2.8	19	80	8	63	45	0	0	54	0.99
634529--634579	19	2.7	20	85	8	63	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634695--634733	7	5.9	7	82	11	55	69	0	0	30	0.89
635843--635881	12	3.5	11	83	16	53	61	0	0	38	0.96
635838--635881	22	2.0	22	86	8	63	56	0	0	43	0.99
637089--637140	20	2.5	20	82	11	61	25	0	9	65	1.23
638535--638573	4	10.2	4	94	5	64	79	0	20	0	0.73
641798--641840	21	2.0	23	86	9	63	69	2	16	11	1.28
643260--643294	2	17.5	2	100	0	70	51	0	0	48	1.00
645764--645800	18	2.1	18	90	5	58	51	8	0	40	1.32
646060--646101	5	8.4	5	94	5	52	80	0	19	0	0.70
646627--646659	2	16.5	2	100	0	66	51	0	0	48	1.00

Tables:   1   2   3   4   5