genome.fa.s34.2.7.7.80.10.50.1000.3.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: Scaffold34
Parameters: 2 7 7 80 10 50 1000
Length:  1758877

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

This is table  3  of  12  ( 1352 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)
337654--337750	28	3.4	27	80	11	86	20	17	29	31	1.96
337556--337814	121	2.1	125	84	5	330	27	14	31	26	1.95
337447--337814	29	12.0	29	74	11	186	28	15	31	25	1.95
339252--339305	6	9.5	6	77	18	53	0	0	16	83	0.65
339252--339335	34	2.5	35	81	11	95	0	4	13	82	0.83
353148--353272	52	2.4	52	94	0	214	28	17	17	36	1.93
353148--353292	52	2.8	51	88	4	202	30	17	17	34	1.93
353281--353305	13	1.9	13	100	0	50	36	16	16	32	1.90
353348--353445	19	5.8	18	69	28	81	36	16	12	34	1.86
353367--353423	13	3.9	13	72	24	51	33	15	14	36	1.88
353346--353443	32	3.0	32	93	1	169	35	16	12	35	1.86
354870--354902	14	2.4	14	95	5	59	48	0	15	36	1.45
354970--355001	16	2.0	16	100	0	64	43	6	6	43	1.54
358171--358223	16	3.4	16	73	2	54	18	13	20	47	1.82
358151--358226	31	2.4	32	82	8	93	19	11	25	43	1.85
359751--359807	13	4.2	13	75	20	55	66	1	29	1	1.12
359848--359911	11	5.9	11	70	23	55	32	1	0	65	1.02
359850--359911	23	3.0	20	76	21	72	32	1	0	66	1.02
360408--360449	22	1.9	22	85	9	59	47	2	2	47	1.28
361587--361627	8	5.2	8	82	11	50	43	0	0	56	0.99
361591--361633	7	5.9	7	81	10	50	44	0	0	55	0.99
361587--361630	15	2.9	15	87	12	63	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)
361587--361636	23	2.3	23	86	6	68	44	0	0	56	0.99
361952--362231	111	2.5	111	80	10	320	44	6	3	45	1.47
363726--363751	2	13.0	2	100	0	52	50	0	0	50	1.00
364969--365577	165	3.7	164	81	5	639	31	10	8	50	1.65
364969--365577	327	1.9	327	84	4	818	31	10	8	50	1.65
365491--365673	93	1.9	96	84	3	246	30	9	9	50	1.67
365317--365835	257	2.0	253	79	8	548	31	10	8	50	1.66
366092--366129	18	2.1	19	90	5	60	89	2	7	0	0.57
366092--366129	17	2.3	17	86	4	51	89	2	7	0	0.57
367616--368159	158	3.5	154	76	8	453	25	14	19	40	1.89
367911--368205	154	1.9	154	83	2	378	26	16	18	37	1.92
371232--371274	21	2.1	21	86	4	61	79	2	18	0	0.85
373614--373986	79	4.7	80	79	5	418	35	14	21	27	1.93
373603--373986	160	2.4	157	83	8	490	35	14	21	28	1.92
373938--374010	27	2.6	28	83	12	105	34	19	21	24	1.96
373872--374071	105	1.9	106	84	3	269	36	13	21	29	1.91
377036--377527	61	8.1	60	83	3	504	28	18	26	26	1.98
377036--377540	123	4.1	121	82	4	543	29	18	26	26	1.98
377036--377518	184	2.6	180	81	7	539	29	17	26	26	1.98
378540--378578	16	2.4	17	86	4	53	2	2	7	87	0.73
388872--388898	4	6.8	4	100	0	54	77	0	0	22	0.76
390933--391310	79	4.8	79	85	2	427	33	14	24	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390930--391310	159	2.4	158	86	2	505	33	14	23	28	1.94
393737--393860	50	2.5	50	94	0	212	43	14	16	25	1.86
393758--393851	30	3.5	29	70	27	98	41	17	17	24	1.89
394869--395003	35	3.9	35	78	2	137	22	20	10	45	1.81
395270--395325	20	2.8	19	89	5	76	39	14	16	30	1.88
395377--395440	20	3.7	18	74	25	66	43	15	12	28	1.83
395395--395420	13	2.0	13	100	0	52	38	15	15	30	1.88
395377--395440	32	2.0	33	93	3	112	43	15	12	28	1.83
399487--399517	15	2.1	15	93	0	53	48	16	22	12	1.80
404027--404082	20	2.8	19	89	5	76	39	14	16	30	1.88
404133--404184	19	2.7	20	90	6	88	44	15	11	28	1.81
404924--405032	56	1.9	56	90	0	173	26	22	9	42	1.83
404978--405519	70	7.7	70	82	2	552	22	22	12	42	1.87
404978--405515	35	15.4	35	81	2	501	22	22	12	42	1.87
406717--407626	166	5.5	164	83	5	987	31	9	7	50	1.63
407923--407978	19	2.9	18	79	10	58	83	3	12	0	0.76
409961--410014	19	2.8	19	83	10	58	81	12	1	3	0.91
409971--410000	13	2.3	13	94	0	51	90	10	0	0	0.47
411333--411698	34	11.0	34	78	11	314	20	31	12	34	1.91
411313--411662	68	5.2	68	82	7	346	21	31	13	33	1.92
411333--411671	102	3.4	99	79	10	348	20	31	12	35	1.90
411642--411719	29	2.8	28	86	9	115	24	33	15	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411791--412730	49	18.9	49	83	6	1051	23	26	17	32	1.97
411903--411970	21	3.2	21	65	19	50	26	29	16	27	1.97
411925--412766	101	8.3	101	90	2	1145	23	26	17	33	1.96
411791--412766	202	4.9	202	87	4	1276	23	26	17	32	1.97
413441--413503	19	3.6	19	72	24	75	33	14	19	33	1.91
413441--413511	32	2.2	32	97	0	133	32	14	19	33	1.92
413569--413667	52	1.9	52	91	4	164	28	16	17	38	1.91
414299--414361	19	3.6	19	72	24	75	33	14	19	33	1.91
414299--414369	32	2.2	32	97	0	133	32	14	19	33	1.92
414427--414525	52	1.9	52	91	4	164	28	16	17	38	1.91
412977--414695	858	2.0	857	99	0	3384	30	18	18	31	1.95
418363--418927	157	3.6	155	78	7	475	23	14	20	41	1.89
421079--421151	2	37.0	2	78	8	69	49	1	4	45	1.29
421983--422017	17	2.1	17	94	0	61	45	2	0	51	1.16
422024--422068	23	1.9	24	86	4	65	64	0	0	35	0.94
422554--422589	2	18.0	2	100	0	72	50	0	0	50	1.00
423166--423201	3	12.0	3	100	0	72	33	0	0	66	0.92
423495--423524	2	15.0	2	100	0	60	50	0	0	50	1.00
423587--423627	15	2.9	15	80	20	52	46	0	0	53	1.00
424136--424161	6	4.3	6	100	0	52	0	65	0	34	0.93
424438--424707	134	2.0	136	89	2	420	43	8	2	44	1.49
427957--427995	18	2.2	18	100	0	78	15	10	33	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433637--433690	12	4.5	12	85	0	54	48	12	0	38	1.42
433641--433666	4	6.5	4	100	0	52	50	23	0	26	1.50
433631--433687	8	7.2	8	84	2	53	49	14	0	36	1.43
434258--434304	20	2.3	20	92	0	76	29	2	6	61	1.32
434825--434863	19	2.1	18	85	4	51	53	2	0	43	1.14
435151--435231	29	2.7	29	84	7	92	55	0	1	43	1.07
435194--435264	24	3.0	23	77	6	79	60	0	1	38	1.06
435184--435256	24	3.0	25	80	8	71	63	0	1	35	1.04
435339--435374	6	6.0	6	96	0	54	55	27	16	0	1.42
442949--442976	2	14.0	2	100	0	56	50	0	50	0	1.00
444502--444610	9	12.6	9	72	18	63	45	0	0	52	1.13
446033--446057	12	2.1	12	100	0	50	68	0	0	32	0.90
453269--453307	20	2.0	20	84	0	51	48	2	5	43	1.38
453932--453959	14	2.0	14	100	0	56	21	21	28	28	1.99
454011--454043	17	1.9	17	93	0	57	63	0	0	36	0.95
454055--454179	19	6.7	18	70	23	62	58	1	0	39	1.13
454055--454178	18	6.6	19	68	23	57	58	1	0	38	1.13
454051--454179	56	2.3	57	80	12	142	58	1	0	39	1.13
454889--454927	18	2.2	18	90	4	62	61	2	15	20	1.45
454755--455008	136	1.9	138	87	3	370	55	3	12	28	1.55
458700--458752	21	2.4	21	81	9	61	41	16	13	28	1.86
466758--466865	20	5.9	19	77	15	102	32	13	15	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466750--466864	52	2.2	52	93	0	194	33	13	14	38	1.86
466794--466825	13	2.5	13	95	5	57	40	12	9	37	1.75
466894--466947	20	2.7	20	91	5	83	31	12	18	37	1.89
473063--473102	13	3.1	13	85	0	53	30	12	15	42	1.83
474913--475105	97	2.0	97	93	0	332	38	6	18	35	1.77
475649--475674	13	2.0	13	100	0	52	30	15	15	38	1.88
475752--475776	13	1.9	13	100	0	50	36	16	16	32	1.90
478268--478484	119	1.8	120	91	1	364	27	8	11	51	1.68
485679--485749	15	4.5	15	73	13	61	50	1	1	46	1.18
485672--485749	17	4.5	17	78	13	63	50	1	1	47	1.17

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