genome.fa.s7.2.7.7.80.10.50.1000.3.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  3  of  37  ( 4421 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)
319233--319307	9	7.7	9	73	19	53	80	17	1	1	0.86
319232--319321	10	8.8	10	77	15	78	78	17	2	1	0.91
319232--319321	19	4.4	19	76	15	83	78	17	2	1	0.91
319242--319301	22	2.8	22	85	5	70	78	18	1	1	0.92
319264--319322	13	4.5	13	77	14	59	81	16	1	0	0.78
319267--319297	16	1.9	16	93	0	53	80	19	0	0	0.71
320537--321157	28	21.4	28	76	9	496	29	30	17	22	1.97
320527--321157	147	4.3	142	81	7	621	29	30	17	22	1.97
320650--321157	88	5.8	87	79	5	413	30	30	16	22	1.96
321274--321483	48	4.5	48	87	4	250	20	27	17	35	1.94
321274--321483	94	2.2	93	83	5	244	20	27	17	35	1.94
322199--322256	20	2.9	20	92	0	98	29	15	12	43	1.83
329398--329454	29	2.0	29	89	0	87	24	28	26	21	1.99
339361--339840	57	8.4	57	86	4	589	29	27	16	26	1.97
339361--339840	28	16.9	28	86	5	554	29	27	16	26	1.97
339821--339920	31	3.3	31	79	5	98	31	29	17	23	1.96
340974--341090	20	5.8	20	75	2	126	31	11	13	43	1.79
340974--341089	41	2.9	40	85	2	178	31	11	13	43	1.80
341095--341175	20	3.2	25	65	32	64	25	14	9	49	1.75
341107--341188	20	3.5	20	69	30	65	29	13	10	46	1.77
341056--341191	51	2.7	51	97	0	254	28	16	10	44	1.80
345215--345267	20	2.5	21	88	11	74	41	11	15	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347863--347925	19	3.6	19	76	24	84	33	12	19	34	1.89
347882--347939	13	4.0	13	74	23	53	34	15	17	32	1.91
347861--347938	32	2.4	32	97	0	147	34	14	17	33	1.90
349350--349391	11	3.5	12	83	9	50	83	9	2	4	0.88
350675--350798	32	4.0	30	79	8	149	23	28	13	34	1.93
350678--350798	62	2.0	62	83	9	158	23	27	14	34	1.93
350675--350831	32	4.9	32	76	8	99	22	29	13	35	1.92
350799--350939	27	5.2	27	91	3	212	21	33	14	31	1.93
350907--351067	34	4.8	34	83	4	211	18	34	12	35	1.88
351073--351139	33	2.0	33	91	0	107	28	31	16	23	1.96
351152--351561	49	8.5	48	77	9	372	23	25	18	32	1.97
351139--351510	92	3.9	92	90	3	519	23	25	19	31	1.98
351328--351611	49	5.5	50	77	5	196	25	25	16	32	1.96
351368--351611	53	4.7	52	76	8	149	25	25	15	33	1.95
352188--352226	21	1.9	20	89	5	60	35	15	10	38	1.81
352257--352316	19	3.0	20	76	9	61	43	13	13	30	1.82
352304--352328	13	1.9	13	100	0	50	36	16	16	32	1.90
352283--352350	32	2.1	32	100	0	136	35	11	19	33	1.88
352285--352347	19	3.6	19	76	24	84	33	12	19	34	1.89
358671--358811	51	2.8	51	83	0	165	27	17	12	43	1.84
358662--358831	51	3.3	51	77	4	164	28	17	12	41	1.86
361166--361387	79	2.8	79	82	2	259	29	25	10	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361322--361430	51	2.2	50	83	1	128	28	25	11	34	1.90
361373--361677	79	3.9	77	75	5	218	26	25	12	34	1.92
361243--361513	129	2.1	130	82	4	325	29	25	11	33	1.90
361210--361596	208	1.9	209	84	3	530	28	25	12	34	1.92
363847--363878	3	10.7	3	93	0	55	28	34	3	34	1.73
366763--366792	15	1.9	16	93	6	53	46	20	13	20	1.83
369625--369667	19	2.3	19	100	0	86	34	9	4	51	1.55
372979--373004	13	2.0	13	100	0	52	30	15	15	38	1.88
372959--373022	32	2.0	33	90	3	103	28	14	18	39	1.90
372959--373029	19	4.0	18	72	25	62	26	12	21	39	1.89
373672--373813	59	2.4	60	98	1	277	31	23	7	37	1.82
381783--381808	13	2.0	13	100	0	52	30	15	15	38	1.88
381763--381826	32	2.0	33	90	3	103	28	14	18	39	1.90
381763--381833	19	4.0	18	72	25	62	26	12	21	39	1.89
382786--382816	7	4.4	7	100	0	62	12	0	0	87	0.55
386063--386583	156	3.4	156	81	7	481	25	17	19	37	1.93
386176--386729	156	3.6	154	80	7	565	25	16	19	38	1.92
390679--390733	22	2.5	22	100	0	110	74	0	21	3	0.97
390992--391245	112	2.3	111	79	6	246	31	18	12	36	1.89
391590--391826	88	2.7	89	81	2	235	20	18	14	46	1.84
392699--392802	48	2.2	48	89	5	165	20	21	15	43	1.88
392789--392930	44	3.2	44	75	11	130	22	26	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393061--393261	43	4.7	43	81	3	226	19	28	15	35	1.93
393061--393277	86	2.5	86	81	5	251	18	29	17	35	1.94
393201--393293	43	2.2	43	82	0	105	18	30	21	30	1.97
393061--393303	86	2.8	85	77	7	240	18	28	17	35	1.94
393364--393462	42	2.3	43	76	8	105	22	29	20	28	1.98
393588--394100	84	6.1	84	81	4	561	21	30	14	34	1.92
393588--393858	41	6.5	41	69	11	158	20	31	13	33	1.92
393588--394047	250	1.8	250	86	0	661	21	30	14	34	1.92
394093--394215	43	2.9	41	76	5	120	17	27	13	42	1.86
395489--395516	14	2.0	14	100	0	56	14	7	0	78	0.95
396720--397121	79	5.1	80	78	4	368	34	13	23	28	1.92
397073--397190	50	2.3	51	84	5	159	32	11	26	29	1.92
396843--397408	288	2.0	288	82	2	708	35	12	23	28	1.92
397155--397444	79	3.7	78	80	3	305	35	12	22	28	1.91
397025--397267	129	1.9	130	81	5	296	35	10	23	30	1.89
396913--397347	208	2.1	210	82	1	543	35	12	23	28	1.91
397148--397436	158	1.8	158	82	4	368	36	12	22	28	1.90
399397--399434	20	1.9	20	94	0	67	26	15	5	52	1.64
401001--401048	22	2.2	22	84	0	60	41	31	12	14	1.83
402844--403670	156	5.3	155	76	5	638	25	16	18	39	1.92
403040--403670	311	2.0	311	82	4	772	24	17	18	39	1.92
405367--405415	23	2.1	24	85	11	66	57	4	2	36	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407639--408059	161	2.6	162	83	5	510	38	12	12	36	1.81
409469--409856	166	2.4	163	80	12	420	51	9	10	28	1.68
409586--409893	166	1.8	166	82	8	394	49	8	12	30	1.70
410385--410477	20	4.7	19	82	12	82	32	16	16	35	1.91
410507--410560	20	2.7	21	80	8	67	37	14	16	31	1.89
418158--418224	33	2.0	33	88	0	98	23	32	16	26	1.96
419242--419295	20	2.7	20	82	8	65	35	12	18	33	1.89
420863--420990	64	2.0	64	100	0	256	34	15	17	32	1.91
421849--421984	42	3.2	42	76	10	134	39	16	24	19	1.91
422532--422681	78	1.9	78	91	0	246	30	14	26	28	1.95
423624--423648	9	2.8	9	100	0	50	56	32	0	12	1.36
423840--423915	30	2.6	30	78	12	95	26	27	13	32	1.93
423981--424277	32	9.3	33	85	4	371	29	32	18	18	1.95
424286--425065	52	14.8	52	75	6	595	24	23	15	36	1.93
424286--425065	104	7.4	104	80	5	823	24	23	15	36	1.93
424293--424892	310	1.9	313	83	3	780	24	22	16	37	1.94
424850--425331	61	8.2	61	79	8	437	24	25	12	37	1.90
425036--425366	122	2.7	121	85	3	351	25	25	12	36	1.91
425015--425415	184	2.2	183	82	4	477	24	24	12	37	1.91
426920--427030	49	2.2	50	88	1	170	29	17	8	45	1.77
427909--427956	21	2.5	20	83	12	64	25	29	12	33	1.92
432451--432957	157	3.2	154	83	5	599	35	12	23	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432440--432957	79	6.6	79	83	3	551	36	12	22	28	1.90
432440--432957	236	2.2	236	84	4	652	36	12	22	28	1.90
432967--433009	20	2.1	20	91	4	68	53	4	9	32	1.53
442167--442213	17	2.8	17	78	21	62	23	2	0	74	0.93
442780--443067	43	6.7	43	77	1	265	36	15	28	18	1.92
442864--443019	85	1.8	85	88	0	240	35	16	30	17	1.93
442864--443067	85	2.4	85	80	4	239	35	15	29	19	1.93
446188--446315	52	2.5	52	89	1	195	31	16	16	35	1.91
446188--446335	52	2.9	51	84	5	183	32	16	16	34	1.92
446324--446348	13	1.9	13	100	0	50	36	16	16	32	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37