genome.fa.s134.2.7.7.80.10.50.1000.4.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: Scaffold134
Parameters: 2 7 7 80 10 50 1000
Length:  811437

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 559 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)
526936--527026	27	3.5	25	77	11	76	26	7	20	45	1.78
531871--531911	18	2.5	17	81	14	50	78	0	19	2	0.87
531860--531911	20	2.6	20	84	6	61	75	0	23	1	0.91
532882--532933	22	2.4	22	78	12	61	36	5	13	44	1.68
532926--532964	17	2.3	17	81	0	51	28	0	0	71	0.86
534896--535361	233	2.0	233	93	1	801	41	6	8	42	1.62
538328--538358	4	7.8	4	100	0	62	22	0	0	77	0.77
539379--539412	2	17.0	2	100	0	68	50	0	0	50	1.00
540252--540298	23	2.1	22	84	7	60	38	40	2	19	1.63
543972--544053	34	2.4	35	81	2	103	39	35	1	24	1.63
544008--544054	23	2.1	22	84	7	60	40	38	2	19	1.63
551281--553157	970	1.9	956	87	3	2478	37	18	16	27	1.92
554720--554762	17	2.6	18	82	14	56	41	0	0	58	0.98
558737--558775	18	2.2	17	86	13	53	53	0	0	46	1.00
558716--558777	21	3.2	18	81	11	61	51	0	0	48	1.00
559694--559733	21	1.9	21	94	0	71	65	5	0	30	1.14
560314--560354	14	2.9	14	88	3	55	63	0	0	36	0.95
561232--561290	28	2.2	26	85	11	75	54	0	3	42	1.17
562153--562193	16	2.7	15	85	10	57	51	0	0	48	1.00
562729--562767	15	2.7	15	88	11	55	53	0	0	46	1.00
563467--563513	19	2.4	20	83	13	62	55	2	0	42	1.12
563480--563534	19	3.1	17	78	21	51	60	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570050--570102	21	2.5	21	74	17	56	41	18	0	39	1.51
575143--575175	2	16.5	2	100	0	66	51	0	0	48	1.00
581083--581171	32	2.8	30	71	22	74	42	0	2	55	1.12
581162--581219	29	2.1	28	81	12	66	53	0	0	46	1.00
582842--582937	30	3.2	31	71	10	99	42	2	17	37	1.61
582948--583010	28	2.2	28	83	5	74	49	3	1	46	1.27
589016--589088	34	2.2	33	82	2	83	31	6	6	54	1.53
589024--589088	33	1.9	34	84	3	87	32	7	6	53	1.54
601606--601662	21	2.7	21	97	0	105	33	10	19	36	1.86
601718--601804	19	4.9	19	83	16	123	34	11	14	39	1.83
601758--601782	13	1.9	13	100	0	50	36	16	16	32	1.90
601739--601801	32	2.0	32	96	0	117	34	12	15	36	1.86
601844--601871	13	2.2	13	100	0	56	28	14	17	39	1.89
601824--601890	33	2.0	33	91	0	107	25	14	14	44	1.84
605374--605582	104	2.0	104	100	0	418	27	16	11	44	1.82
606680--606752	11	6.6	11	74	12	69	38	1	0	60	1.06
606676--606725	22	2.4	22	90	6	77	38	0	0	62	0.96
606912--606954	12	3.6	12	78	12	52	41	4	2	51	1.35
607220--607267	12	3.8	12	76	10	51	41	0	4	54	1.20
615251--615279	4	7.2	4	100	0	58	72	0	0	27	0.85
627102--627138	11	3.8	10	83	16	51	40	8	0	51	1.32
627169--627208	18	2.2	18	90	0	62	47	5	5	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631007--631050	20	2.2	20	92	4	72	47	4	0	47	1.22
631399--631436	14	2.6	15	83	8	51	36	2	0	60	1.11
635528--635552	2	12.5	2	100	0	50	52	0	0	48	1.00
636461--636490	12	2.5	12	94	0	51	56	3	0	40	1.16
636701--636773	20	3.6	21	73	17	73	60	1	0	38	1.06
636722--636797	19	3.8	19	69	19	55	57	1	0	40	1.07
636939--637030	10	9.1	10	72	20	59	34	1	0	64	1.01
636981--637030	15	3.3	14	78	15	55	32	0	0	68	0.90
636946--637030	31	2.8	31	82	7	95	34	1	0	64	1.01
643761--643825	28	2.3	28	84	10	80	52	1	0	46	1.10
647374--647407	9	3.7	9	88	4	50	44	0	0	55	0.99
648131--648155	2	12.5	2	100	0	50	52	48	0	0	1.00
648208--648271	6	10.7	6	87	0	83	50	6	0	43	1.27
648208--648271	4	16.0	4	86	0	83	50	6	0	43	1.27
648208--648271	10	6.4	10	88	0	83	50	6	0	43	1.27
649323--649378	22	2.6	21	77	11	60	66	1	1	30	1.12
651103--651155	25	2.1	26	82	3	63	47	0	0	52	1.00
651934--651982	26	2.0	24	84	8	62	44	4	0	51	1.20
652193--652231	13	3.1	13	92	3	62	38	0	0	61	0.96
653169--653255	11	8.0	11	73	14	65	62	0	4	33	1.16
653209--653248	20	2.0	20	90	5	62	67	0	2	30	1.04
653860--653890	10	3.1	10	95	0	53	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)
654123--654161	15	2.5	15	95	4	69	41	0	0	58	0.98
654245--654298	21	2.6	21	73	26	60	59	0	0	40	0.98
655316--655344	2	14.5	2	100	0	58	48	0	0	51	1.00
657328--657363	2	18.0	2	94	0	63	52	0	0	47	1.00
657589--657659	23	3.1	22	80	13	72	61	0	2	35	1.10
657588--657660	28	2.8	25	78	19	71	60	0	2	36	1.11
659240--659300	30	2.1	30	81	6	72	40	3	0	55	1.16
659474--659511	2	20.0	2	84	10	53	47	0	2	50	1.15
660518--660573	6	9.5	6	73	11	53	60	0	0	39	0.97
660516--660590	24	3.4	24	70	24	74	56	0	0	44	0.99
660519--660582	17	3.7	18	79	6	69	57	0	0	42	0.98
660515--660593	41	1.9	41	92	0	131	55	0	0	44	0.99
661629--661698	4	17.5	4	90	0	86	41	0	8	50	1.33
661629--661698	6	11.7	6	87	0	86	41	0	8	50	1.33
662483--662515	8	4.1	8	88	11	50	63	0	3	33	1.10
662712--662744	2	16.5	2	100	0	66	48	0	0	51	1.00
662742--662776	4	8.8	4	100	0	70	25	0	22	51	1.48
663484--663590	52	2.1	52	96	0	196	57	14	8	19	1.62
663486--663572	27	3.3	26	68	19	72	58	12	9	19	1.61
664465--664495	15	2.1	15	93	0	53	58	6	0	35	1.24
664811--664870	2	30.0	2	87	12	88	50	0	3	46	1.18
664815--664870	20	2.8	20	100	0	112	50	0	3	46	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665077--665146	22	3.5	20	76	18	74	65	1	0	32	1.01
665070--665240	11	15.0	11	68	19	59	60	1	0	37	1.07
665072--665152	24	3.4	23	83	10	101	65	1	0	33	1.01
665192--665233	12	3.4	12	78	18	50	69	0	0	30	0.89
666151--666194	22	2.0	22	91	8	72	40	0	0	59	0.98
666220--666274	17	3.7	15	76	11	51	40	3	0	56	1.17
666338--666407	13	5.9	11	73	17	52	61	0	2	35	1.11
666309--666407	47	2.1	48	86	5	139	57	1	4	37	1.24
667480--667515	16	2.2	16	95	0	63	30	11	22	36	1.89
668221--668402	84	2.2	84	93	0	310	37	18	6	38	1.75
669356--669430	24	3.4	24	70	24	74	54	0	0	45	0.99
669364--669413	17	2.8	18	84	9	75	58	0	0	42	0.98
669364--669416	18	3.0	17	83	5	70	54	0	0	45	0.99
669385--669431	17	2.9	17	76	17	55	53	0	0	46	1.00
669398--669451	13	4.2	13	77	13	58	50	1	0	48	1.11
669427--669473	23	2.0	23	87	0	67	36	4	2	57	1.30
670248--670282	2	17.5	2	100	0	70	0	0	48	51	1.00
670524--670564	18	2.3	18	91	8	66	46	24	14	14	1.82
671029--671143	20	5.8	20	68	24	59	56	0	2	40	1.19
671055--671158	16	6.8	16	70	17	69	54	0	1	42	1.17
671055--671163	8	13.1	8	70	22	57	55	0	1	41	1.16
671872--671908	18	2.1	18	89	0	56	40	24	0	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673330--673389	18	3.3	18	79	9	61	55	0	0	45	0.99
673364--673416	18	2.9	18	83	8	54	49	0	0	50	1.00
673654--673711	20	2.9	19	78	14	64	37	0	0	62	0.96
673678--673730	16	3.4	15	82	7	61	35	0	0	64	0.94
673677--673747	25	2.8	26	81	8	76	39	0	0	60	0.97
674422--674456	2	17.5	2	100	0	70	48	0	0	51	1.00
674721--674760	18	2.2	18	86	0	53	42	25	15	17	1.88
675197--675259	11	5.5	11	75	20	67	65	0	1	33	1.03
675196--675267	16	4.8	16	72	16	64	62	0	1	36	1.04
675200--675259	20	2.9	21	74	18	63	65	0	1	33	1.03

Tables:   1   2   3   4   5