genome.fa.s1041.2.7.7.80.10.50.1000.3.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: Scaffold1041
Parameters: 2 7 7 80 10 50 1000
Length:  1020100

Tables:   1   2   3   4   

This is table  3  of  4  ( 440 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)
490168--490223	28	2.0	29	85	3	78	46	3	3	46	1.37
490431--490481	20	2.4	22	80	9	61	43	0	0	56	0.99
501182--501210	7	4.3	7	95	4	51	13	27	13	44	1.82
501173--501210	14	2.9	13	88	7	51	10	31	18	39	1.85
502431--502480	14	3.4	14	78	10	55	38	0	2	60	1.09
502438--502469	16	1.9	17	93	6	57	31	0	0	68	0.90
502513--502551	19	2.1	19	95	0	69	38	17	20	23	1.93
502939--502973	6	5.8	6	86	0	52	20	77	0	2	0.90
502939--502986	12	4.0	12	91	5	71	18	75	0	6	1.01
503948--503976	2	15.0	2	92	7	51	51	48	0	0	1.00
505694--505750	21	2.7	21	72	0	60	54	3	0	42	1.17
506598--506632	16	2.1	18	89	10	56	45	0	0	54	0.99
506647--506714	5	14.4	5	73	17	56	36	0	0	63	0.95
506632--506692	17	3.5	17	80	15	63	31	1	1	65	1.12
506644--506715	35	2.1	34	87	10	101	34	0	0	65	0.93
506646--506716	13	6.3	12	77	19	66	36	0	0	63	0.95
508791--508840	25	2.0	25	100	0	100	28	8	12	52	1.66
513244--513271	2	14.0	2	100	0	56	50	0	0	50	1.00
536818--536869	26	2.0	26	88	3	79	50	0	0	50	1.00
537215--537282	29	2.3	31	84	5	86	45	1	1	51	1.19
538488--538515	3	9.3	3	100	0	56	64	0	35	0	0.94
546207--546231	4	6.2	4	100	0	50	28	48	24	0	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546880--546920	2	20.5	2	100	0	82	48	0	0	51	1.00
550170--550209	19	2.2	19	86	13	57	65	0	0	35	0.93
550247--550278	16	2.0	16	93	0	55	21	0	0	78	0.76
550355--550406	16	3.4	16	78	21	58	46	0	0	53	1.00
550355--550389	17	2.1	17	89	10	54	40	0	0	60	0.97
562804--562885	40	2.0	40	100	0	164	43	24	4	26	1.74
578985--579012	2	14.0	2	100	0	56	50	0	0	50	1.00
579479--579512	2	17.0	2	93	0	59	47	0	2	50	1.16
585203--585228	13	2.0	13	100	0	52	38	15	15	30	1.88
585185--585249	34	2.0	34	87	6	98	43	16	13	26	1.86
585283--585326	20	2.1	22	91	8	74	40	20	9	29	1.83
587597--587629	2	16.5	2	100	0	66	51	0	0	48	1.00
588004--588649	318	2.0	320	93	2	1086	32	21	15	29	1.95
594776--594808	3	11.0	3	100	0	66	66	0	0	33	0.92
599122--599188	32	2.2	31	89	5	100	32	0	0	67	0.91
599131--599178	16	3.0	16	71	0	51	33	0	0	66	0.92
602358--602425	33	2.0	34	85	5	93	35	14	19	30	1.92
603884--604100	34	6.4	34	89	0	292	25	7	26	40	1.83
603886--604100	102	2.1	102	90	0	333	25	7	26	40	1.83
604405--604467	19	3.3	19	88	0	81	28	15	19	36	1.92
608533--608751	34	6.5	34	89	0	296	25	7	26	40	1.83
608537--608751	102	2.1	102	90	0	333	25	7	26	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609896--609937	21	2.0	21	100	0	84	38	14	28	19	1.90
610401--610435	18	1.9	18	88	0	52	20	0	2	77	0.90
615659--615715	3	19.0	3	96	0	105	33	0	1	64	1.04
616135--616160	2	13.0	2	100	0	52	50	0	0	50	1.00
617718--617755	2	19.0	2	94	0	67	47	2	0	50	1.15
618158--618195	2	19.0	2	100	0	76	50	0	0	50	1.00
621242--621301	31	2.0	31	86	3	86	63	0	0	36	0.95
621248--621293	20	2.3	21	85	7	60	63	0	0	36	0.95
621308--621354	21	2.3	20	82	7	60	53	0	0	46	1.00
621638--621684	11	4.1	12	81	8	53	80	0	2	17	0.80
621644--621689	23	2.0	23	86	0	65	76	0	4	19	0.96
621844--622178	50	6.6	50	89	1	490	30	20	19	29	1.97
621844--622178	101	3.3	101	90	1	537	30	20	19	29	1.97
621841--622178	152	2.2	152	88	2	500	30	20	19	29	1.97
624856--625462	303	2.0	303	97	0	1151	24	26	15	34	1.94
626888--627197	101	3.1	101	93	0	514	30	21	18	30	1.97
626888--627197	50	6.2	50	90	1	458	30	21	18	30	1.97
627644--627692	2	25.0	2	95	4	91	48	0	0	51	1.00
628773--628971	99	2.0	99	94	1	346	32	13	19	35	1.90
634233--634276	18	2.4	18	88	3	61	27	2	0	70	0.99
634319--634371	23	2.3	21	76	20	52	45	0	0	54	0.99
635010--635035	3	8.7	3	100	0	52	69	30	0	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653867--653952	43	2.0	43	88	4	129	33	24	26	15	1.95
658255--658368	16	6.9	18	70	18	61	39	0	0	59	1.03
658317--658365	9	5.7	9	77	15	50	38	0	0	61	0.96
658314--658365	26	2.1	24	89	7	77	40	0	0	59	0.97
663371--663404	16	2.1	16	100	0	68	61	0	0	38	0.96
664766--664807	17	2.6	16	85	11	50	52	2	0	45	1.13
664771--664807	16	2.2	18	85	9	51	54	2	0	43	1.14
665198--665234	13	2.8	14	80	12	51	54	0	0	45	1.00
665199--665297	23	4.4	22	68	18	69	49	0	1	49	1.07
665199--665288	46	1.9	46	86	8	128	50	0	1	48	1.08
682046--682116	27	2.6	28	84	2	90	23	4	22	49	1.67
684691--684736	21	2.1	22	88	4	67	32	19	28	19	1.96
686609--686674	27	2.4	28	89	2	98	22	4	21	51	1.66
687678--687713	2	18.0	2	88	0	54	44	0	0	55	0.99
694801--694828	2	14.0	2	100	0	56	50	0	0	50	1.00
700422--700470	16	2.8	17	85	11	64	44	0	0	55	0.99
701770--701813	20	2.2	20	96	4	81	13	54	4	27	1.58
703525--703560	2	18.0	2	100	0	72	50	0	0	50	1.00
704459--704504	2	22.5	2	82	12	58	50	0	4	45	1.21
719136--719169	3	11.3	3	93	0	59	64	2	0	32	1.08
723088--723128	2	20.5	2	100	0	82	51	0	48	0	1.00
724060--724091	2	16.0	2	100	0	64	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731373--731404	15	2.1	15	94	0	55	3	43	34	18	1.66
733623--733655	9	3.7	9	88	11	50	54	0	0	45	0.99
733623--733652	10	3.1	10	95	4	53	56	0	0	43	0.99
733645--733689	20	2.2	20	84	7	56	37	0	0	62	0.96
739002--739030	14	2.0	15	93	6	51	89	0	6	3	0.57
743959--744038	40	2.0	40	97	0	151	27	17	23	31	1.97
744579--744627	14	3.4	14	78	13	55	59	0	0	40	0.98
747542--747570	5	5.8	5	100	0	58	0	17	0	82	0.66
748897--748927	2	15.5	2	100	0	62	48	0	0	51	1.00
750961--751003	16	2.4	18	85	14	54	67	0	0	32	0.91
750961--751005	17	2.5	19	80	20	60	66	0	0	33	0.92
750975--751020	16	2.8	17	80	9	51	69	4	0	26	1.07
751930--751954	4	6.2	4	100	0	50	24	0	0	76	0.80
752119--752162	23	1.9	23	85	0	61	65	0	2	31	1.05
752598--752661	20	3.3	19	81	16	78	40	1	1	56	1.18
752609--752653	21	2.2	20	92	8	72	44	0	0	55	0.99
753067--753117	8	6.6	8	84	8	61	43	1	7	47	1.43
753068--753109	2	22.0	2	80	9	52	45	0	4	50	1.23
757289--757331	9	5.0	8	81	13	50	81	2	16	0	0.79
757298--757331	16	2.1	17	88	5	52	82	0	17	0	0.67
757936--757966	3	10.7	3	93	6	55	70	0	0	29	0.87
760292--760326	17	2.1	17	88	0	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
766007--766041	2	17.5	2	100	0	70	51	0	0	48	1.00
770936--770967	6	5.3	6	96	0	55	37	0	12	50	1.41
771479--771503	2	12.5	2	100	0	50	52	0	0	48	1.00
771503--771536	2	17.0	2	100	0	68	50	0	50	0	1.00
774927--774960	16	2.0	18	88	11	54	47	2	2	47	1.32
775221--775277	30	1.9	30	89	3	89	42	5	0	52	1.24
776842--776883	22	1.9	22	90	0	66	45	0	14	40	1.45
776913--776958	5	9.6	5	77	17	53	56	0	0	43	0.99
776899--776954	24	2.3	24	87	0	76	60	0	0	39	0.97
776914--776958	14	3.5	14	80	20	62	55	0	0	44	0.99

Tables:   1   2   3   4