genome.fa.s63.2.7.7.80.10.50.1000.4.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1834 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)
607815--607897	33	2.5	32	80	7	87	45	1	1	51	1.16
608420--608450	12	2.7	12	95	5	55	67	0	0	32	0.91
608436--608507	32	2.2	31	80	11	74	51	0	1	47	1.09
608596--608658	11	5.9	11	73	14	51	36	0	0	63	0.95
608633--608674	18	2.4	17	81	14	50	38	0	0	61	0.96
608596--608683	27	3.3	26	78	12	81	38	0	0	61	0.96
608772--608804	2	16.5	2	93	0	57	0	48	0	51	1.00
617096--617144	20	2.5	20	80	6	57	34	2	2	61	1.19
617057--617217	11	15.0	11	69	18	99	32	1	1	63	1.16
617118--617205	33	2.5	36	83	12	121	34	2	0	63	1.07
620224--620257	15	2.3	15	90	5	52	44	2	0	52	1.16
620876--620912	14	2.4	16	78	13	51	45	0	0	54	1.00
620973--621025	25	2.0	27	82	7	65	37	9	3	49	1.53
620886--621133	137	1.8	138	94	0	444	43	7	5	43	1.56
621110--621150	18	2.2	19	95	4	75	39	9	4	46	1.58
620890--621163	137	2.1	131	86	6	372	43	7	6	43	1.57
622466--622498	3	11.0	3	93	0	57	33	3	0	63	1.10
627648--627681	2	17.0	2	100	0	68	50	0	0	50	1.00
627857--627905	22	2.2	21	75	10	53	40	0	0	59	0.98
635629--635699	27	2.7	27	80	10	76	42	0	0	57	0.98
635616--635682	18	3.6	18	75	15	55	41	0	0	58	0.98
635618--635684	20	3.5	20	75	17	70	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635660--635715	16	3.5	16	83	16	80	42	0	0	57	0.99
635654--635744	28	3.1	28	84	10	103	40	0	0	59	0.97
635707--635763	17	3.4	17	83	13	73	33	0	0	66	0.92
635707--635757	16	3.1	16	89	10	77	31	0	0	68	0.90
635655--635745	41	2.2	42	79	15	100	40	0	0	59	0.97
636819--636845	2	13.5	2	100	0	54	51	0	0	48	1.00
640886--640923	15	2.7	15	88	8	53	28	2	0	68	1.03
645832--645925	47	2.0	47	95	0	170	46	12	13	26	1.79
647371--647434	21	3.1	21	68	8	60	46	0	0	53	1.00
647385--647510	57	2.2	57	90	4	193	46	0	0	51	1.12
647402--647510	56	1.9	57	94	1	193	49	0	0	48	1.13
649651--649693	16	2.7	16	89	7	61	32	0	0	67	0.91
651240--651271	13	2.4	14	90	10	50	25	0	0	75	0.81
651240--651271	7	4.9	7	88	11	50	25	0	0	75	0.81
651368--651396	11	2.6	11	100	0	58	62	0	0	37	0.96
652005--652051	22	2.1	22	84	7	60	23	4	10	61	1.46
653252--653299	18	2.6	18	80	12	62	56	0	0	43	0.99
654288--654342	23	2.4	24	82	11	80	45	0	0	54	0.99
654441--654490	14	3.3	14	77	20	55	58	0	0	42	0.98
654441--654490	16	3.2	16	83	10	61	58	0	0	42	0.98
654444--654501	25	2.4	25	83	11	68	53	0	0	46	1.00
654490--654534	16	2.9	15	78	12	54	31	2	0	66	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654487--654550	11	6.0	10	79	18	67	31	1	0	67	1.00
654491--654542	16	3.3	15	75	20	52	32	1	0	65	1.04
654490--654550	21	2.8	21	78	14	70	29	1	0	68	0.99
655041--655075	15	2.2	16	95	5	63	37	17	0	45	1.48
658002--658031	14	2.1	14	93	0	51	70	0	0	30	0.88
660327--660364	2	19.0	2	94	0	67	50	2	0	47	1.15
661980--662016	2	18.5	2	100	0	74	48	0	0	51	1.00
662569--662630	21	2.9	21	78	9	63	58	0	0	41	0.98
681150--681175	2	13.0	2	100	0	52	50	0	0	50	1.00
681355--681394	2	20.0	2	94	0	71	47	0	2	50	1.14
683505--683538	18	1.9	17	88	5	50	47	0	0	52	1.00
683475--683547	27	2.6	28	75	12	87	39	0	1	58	1.06
684640--684865	54	4.2	54	85	1	301	41	23	17	17	1.90
684640--684865	108	2.1	108	88	4	332	41	23	17	17	1.90
694012--694049	19	2.0	20	85	10	53	57	7	5	28	1.49
694504--694532	11	2.7	11	94	5	51	41	0	0	58	0.98
694790--694879	41	2.1	43	81	4	112	52	2	0	45	1.13
694835--694914	29	2.8	28	75	12	74	52	3	1	42	1.27
700877--700934	23	2.5	23	74	17	66	43	0	0	56	0.99
700956--700994	21	1.9	21	84	5	53	25	2	0	71	0.98
700916--700981	27	2.3	31	76	23	72	27	4	1	66	1.20
701393--701637	50	4.9	50	89	2	366	28	18	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705507--705540	14	2.5	14	90	4	52	32	0	0	67	0.91
707605--707799	106	1.8	107	84	3	266	37	8	12	41	1.74
707684--707962	127	2.2	127	92	2	463	40	5	10	44	1.62
708318--708405	22	3.8	23	71	23	60	40	0	4	54	1.21
713894--713940	21	2.1	21	88	7	67	2	38	2	57	1.23
713903--713942	12	3.6	12	80	19	50	2	40	2	55	1.27
713854--714006	66	2.3	67	83	10	199	7	39	3	49	1.48
717850--717898	21	2.4	21	83	10	57	42	0	4	53	1.20
717927--717983	29	2.0	29	96	0	105	42	1	10	45	1.49
721449--721491	21	2.0	22	86	8	63	58	0	6	34	1.25
726457--726525	21	3.4	19	71	23	59	44	0	0	55	0.99
726605--726645	21	2.0	21	85	0	55	46	9	4	39	1.58
727764--727807	18	2.4	18	85	14	56	43	2	0	54	1.12
728629--728726	37	2.5	41	80	16	111	63	0	0	36	0.95
729019--729065	2	23.5	2	100	0	94	48	0	0	51	1.00
730473--730507	2	17.5	2	100	0	70	48	0	0	51	1.00
730841--730873	8	4.2	8	92	3	50	78	0	0	21	0.75
730878--730931	17	3.2	17	71	5	56	44	3	0	51	1.19
730878--730954	33	2.4	33	89	4	122	46	3	0	49	1.20
731904--732418	259	2.0	260	85	4	689	47	8	13	30	1.72
732733--732795	25	2.5	24	78	12	65	58	1	1	38	1.17
732738--732932	98	2.0	98	91	3	320	51	1	1	45	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
732837--732905	27	2.5	27	72	13	68	55	0	1	43	1.08
733104--733191	22	4.3	22	69	24	66	43	0	0	56	0.99
733115--733208	15	6.2	14	70	17	55	40	0	1	58	1.05
733921--733954	16	2.1	16	89	10	52	35	0	0	64	0.94
733935--733968	11	2.9	12	86	8	52	41	0	0	58	0.98
737780--737845	19	3.4	19	72	21	57	43	4	9	42	1.56
737789--737865	41	1.9	41	94	5	140	44	3	7	44	1.51
737800--737864	19	3.3	19	68	19	60	47	3	6	43	1.43
740154--740193	20	2.0	20	85	9	55	30	0	2	67	1.04
740198--740254	18	3.2	18	78	9	55	57	5	0	36	1.21
740519--740592	37	2.1	37	85	14	104	54	0	0	45	1.00
744951--745026	35	2.1	35	83	11	91	47	3	0	48	1.20
745337--745412	10	7.7	9	73	21	55	50	1	1	47	1.18
745385--745425	11	3.9	11	78	21	52	41	0	0	58	0.98
745385--745423	19	2.0	20	95	5	71	43	0	0	56	0.99
746290--746342	18	3.1	17	76	13	54	41	5	0	52	1.25
746924--746986	22	2.9	22	76	17	53	52	0	1	46	1.10
748422--748529	37	3.0	37	78	20	106	35	0	0	64	0.94
748420--748528	22	5.0	23	72	16	88	35	0	0	64	0.94
749327--749368	20	2.2	19	83	8	50	47	2	0	50	1.14
749899--749951	16	3.2	16	74	12	54	60	3	0	35	1.15
749883--749931	19	2.6	18	81	15	55	61	4	2	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750521--750599	20	3.9	19	72	19	63	43	2	0	54	1.14
750552--750590	10	3.9	10	83	12	53	46	0	0	53	1.00
750531--750613	20	4.2	19	77	16	71	40	1	1	56	1.15
751415--751459	23	2.0	23	82	8	56	35	0	6	57	1.25
751942--751968	2	13.5	2	100	0	54	51	0	0	48	1.00
752759--752823	24	2.8	23	81	9	71	47	3	1	47	1.27
752814--752865	23	2.3	23	83	3	61	59	0	0	40	0.97
752841--752873	17	2.0	17	88	5	50	54	0	0	45	0.99
752813--752866	22	2.5	21	77	11	56	57	0	0	42	0.98
754249--754321	36	2.0	36	94	0	128	17	13	27	41	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16