genome.fa.s283.2.7.7.80.10.50.1000.3.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

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

This is table  3  of  15  ( 1700 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)
304142--304307	57	2.8	59	78	14	171	46	0	1	52	1.08
304150--304307	31	5.4	30	66	25	88	46	0	1	52	1.08
304223--304307	33	2.6	34	81	11	104	44	0	1	54	1.07
305253--305315	30	2.1	30	85	5	83	58	0	0	41	0.98
310547--310583	2	18.5	2	94	0	65	0	45	0	54	1.00
318570--318655	31	2.8	31	79	10	95	41	3	2	52	1.31
320163--320190	2	14.0	2	100	0	56	0	50	0	50	1.00
321586--321627	20	2.1	20	86	8	59	35	2	0	61	1.09
321649--321699	16	3.1	18	78	16	65	35	0	0	64	0.94
321673--321711	18	2.2	18	86	9	53	35	0	0	64	0.94
321658--321711	27	2.0	27	85	7	74	35	0	0	64	0.94
322836--322860	2	12.5	2	100	0	50	52	0	0	48	1.00
322860--322885	2	13.0	2	100	0	52	50	0	50	0	1.00
323153--323182	15	2.1	15	93	6	53	53	0	0	46	1.00
328348--328396	26	1.9	26	83	4	64	38	0	0	61	0.96
328437--328469	17	2.0	17	88	5	50	33	0	3	63	1.10
329766--329862	36	3.0	31	73	25	78	44	0	1	54	1.06
329821--329872	25	2.0	26	82	10	63	51	0	0	48	1.00
329841--329894	15	3.8	15	78	4	51	59	0	0	40	0.98
329855--329907	25	2.2	25	80	13	65	64	0	0	35	0.94
331617--331643	3	9.0	3	100	0	54	33	0	0	66	0.92
332009--332065	14	4.4	14	74	17	52	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332009--332081	19	3.8	20	70	12	55	41	0	0	58	0.98
332044--332083	21	2.0	21	85	5	55	42	0	0	57	0.98
332618--332654	19	2.0	18	89	5	56	40	0	0	59	0.97
332713--332776	9	6.3	11	69	22	50	34	0	0	65	0.93
332722--332777	19	2.9	19	83	2	76	33	0	0	66	0.92
333056--333080	3	8.3	3	100	0	50	32	0	0	68	0.90
333657--333701	6	6.6	7	76	23	51	55	0	0	44	0.99
333655--333738	18	4.5	19	77	19	88	57	0	0	42	0.99
333655--333726	20	3.6	21	75	19	82	58	0	0	41	0.98
333695--333762	27	2.5	28	74	11	70	54	1	1	42	1.18
335150--335252	47	2.2	47	96	0	188	31	24	15	29	1.96
338533--338572	19	2.1	19	90	0	62	50	17	7	25	1.72
342611--342642	15	2.1	15	94	0	55	78	6	9	6	1.10
356439--356478	22	2.0	22	85	14	59	50	0	2	47	1.14
356473--356516	15	2.9	15	93	0	79	45	0	6	47	1.29
357552--357617	6	11.0	6	93	0	78	36	33	6	24	1.80
368005--368055	18	2.8	19	70	8	52	43	0	0	56	0.99
368057--368119	10	6.8	10	72	17	55	63	0	0	36	0.95
373027--373073	16	2.8	17	78	12	53	31	6	0	61	1.21
373025--373098	32	2.3	33	80	11	82	33	4	1	60	1.24
373025--373086	32	2.0	32	84	9	83	33	4	0	61	1.17
373190--373222	17	1.9	17	88	11	50	57	3	0	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391807--391840	6	5.7	6	96	0	59	38	14	47	0	1.45
391803--391846	18	2.4	18	80	0	61	45	11	43	0	1.40
395901--395958	23	2.6	22	89	5	98	34	13	5	46	1.66
396918--396974	22	2.6	22	81	10	55	33	0	8	57	1.29
396968--397018	11	4.9	10	84	11	50	45	0	0	54	0.99
396967--397007	10	3.6	11	84	15	57	43	0	0	56	0.99
396967--397048	33	2.3	38	77	14	93	46	0	1	52	1.08
396967--397008	22	1.9	21	85	9	57	45	0	0	54	0.99
397149--397212	21	2.8	23	76	13	69	68	0	0	31	0.90
397164--397218	27	2.1	25	86	6	74	69	0	0	30	0.89
398172--398242	24	2.9	24	82	4	70	35	8	2	53	1.46
400183--400226	23	2.0	22	86	13	63	36	0	0	63	0.95
400604--400668	4	16.2	4	96	0	103	46	24	4	24	1.72
403319--403396	32	2.6	28	81	16	86	42	1	0	56	1.07
403340--403390	14	3.6	13	80	17	57	41	0	0	58	0.98
403340--403368	13	2.1	14	93	6	51	44	0	0	55	0.99
403338--403414	29	2.7	29	80	8	86	45	0	1	53	1.08
404476--404532	25	2.2	24	84	12	69	40	0	0	59	0.97
407007--407125	59	2.0	59	96	0	220	30	22	22	24	1.99
412499--412532	16	2.2	15	89	5	50	41	0	2	55	1.15
413572--413623	27	2.0	25	85	11	68	59	0	0	40	0.97
415849--415925	38	2.0	38	100	0	154	49	10	10	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426714--426748	3	11.7	3	93	0	61	31	0	2	65	1.07
426964--426996	5	6.8	5	86	6	50	60	0	0	39	0.97
428179--428209	2	15.5	2	93	0	53	45	0	3	51	1.17
429475--429531	11	5.0	11	77	14	62	45	0	0	54	0.99
429474--429567	25	3.8	23	70	24	68	45	1	0	53	1.07
429497--429558	18	3.3	19	80	11	65	48	0	0	51	1.00
429514--429576	26	2.4	28	78	10	78	44	1	0	53	1.10
431910--431949	20	2.0	21	85	14	57	35	2	0	62	1.09
431901--432005	19	5.5	19	70	15	74	43	0	0	55	1.06
432154--432207	26	2.0	28	82	10	67	51	0	1	46	1.11
432191--432227	19	1.9	19	88	0	56	64	0	0	35	0.94
432665--432708	22	2.0	23	81	4	54	68	2	13	15	1.31
433859--433960	5	20.0	5	70	18	68	38	1	0	59	1.09
433834--433927	48	2.0	46	83	8	118	40	1	0	58	1.05
433859--433963	16	6.8	16	72	18	73	39	1	0	59	1.09
433859--433924	30	2.2	29	83	2	87	40	1	0	57	1.08
433834--433963	38	3.3	39	81	17	130	39	1	0	59	1.07
434000--434085	5	17.2	5	71	15	54	33	2	1	62	1.15
434001--434087	9	9.3	10	68	22	55	34	2	1	62	1.16
434000--434064	26	2.5	26	83	11	80	33	1	0	64	1.03
434029--434087	18	3.4	17	76	23	61	35	1	1	61	1.16
435855--435888	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440943--440987	17	2.8	17	83	12	60	46	0	0	53	1.00
447961--448018	19	3.1	19	77	7	64	58	0	0	41	0.98
451329--451370	2	21.0	2	100	0	84	50	0	0	50	1.00
454260--454312	23	2.2	23	83	6	61	60	0	3	35	1.15
454638--454675	11	3.6	11	86	6	53	60	0	2	36	1.11
454641--454679	16	2.6	15	84	8	53	64	0	2	33	1.08
455638--455670	17	2.0	17	88	5	50	42	12	27	18	1.85
456900--456928	2	14.5	2	100	0	58	51	0	0	48	1.00
456928--456960	2	16.5	2	100	0	66	51	0	48	0	1.00
457445--457477	4	8.8	4	93	6	52	75	0	24	0	0.80
457450--457476	14	1.9	14	100	0	54	74	0	25	0	0.83
457434--457476	11	3.9	11	82	11	52	72	2	23	2	1.08
460581--460619	21	1.9	20	84	5	51	56	0	5	38	1.22
460852--460887	2	18.0	2	94	0	63	47	0	2	50	1.15
462050--462093	15	2.9	15	79	3	52	47	0	0	52	1.00
468155--468231	32	2.4	31	81	12	77	54	2	0	42	1.14
468163--468217	17	3.0	19	71	15	53	52	1	0	45	1.11
470278--470302	1	25.0	1	100	0	50	0	100	0	0	0.00
476229--476265	18	2.0	19	89	5	58	13	10	18	56	1.66
477211--477270	29	2.0	30	90	9	97	55	1	1	41	1.20
481757--481805	22	2.3	21	85	3	62	36	0	0	63	0.95
481805--481834	15	2.0	15	93	0	51	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481758--481874	18	6.2	18	68	26	64	38	0	0	61	0.96
484714--484773	18	3.5	18	70	19	56	48	1	0	50	1.11
485779--485821	22	2.0	22	86	4	61	27	9	2	60	1.40
486967--487008	22	1.9	22	85	9	59	28	0	4	66	1.12
487381--487439	22	2.9	20	76	11	57	30	0	3	66	1.08
487383--487449	20	3.2	20	73	12	55	28	0	2	68	1.04
487479--487549	16	4.4	16	70	13	56	42	0	1	56	1.08
487504--487574	8	9.0	8	68	20	51	38	0	0	61	0.96
487531--487575	5	9.4	5	77	18	51	33	0	0	66	0.92
488424--488495	16	4.6	16	72	16	53	61	1	2	34	1.19

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