genome.fa.s30.2.7.7.80.10.50.1000.4.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: Scaffold30
Parameters: 2 7 7 80 10 50 1000
Length:  2650045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  4  of  17  ( 1999 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)
482457--482753	153	1.9	153	87	5	440	29	13	31	25	1.93
491106--491200	20	4.8	20	100	0	190	44	10	10	34	1.73
492053--492117	33	2.0	33	84	0	85	32	15	18	33	1.92
492147--492202	19	2.9	19	86	2	67	35	12	17	33	1.88
500835--500931	51	1.9	51	89	0	149	49	11	12	26	1.74
500883--500920	20	1.9	20	94	0	67	47	15	10	26	1.78
507382--507456	21	3.7	20	82	12	89	34	14	18	32	1.91
507381--507437	21	2.7	22	89	10	93	35	14	17	33	1.90
507949--508111	87	1.9	87	81	0	200	28	22	19	30	1.98
508094--508245	31	4.9	31	89	0	205	15	25	32	27	1.95
508304--508393	31	2.9	31	96	0	162	17	25	31	25	1.97
508156--508839	148	4.6	149	90	0	951	23	23	24	29	1.99
508601--508690	31	2.9	31	80	3	101	17	23	30	28	1.97
508750--508867	31	3.8	31	76	4	112	18	23	28	28	1.98
508893--509280	42	9.4	41	74	10	285	42	13	23	19	1.88
517884--517940	22	2.7	21	86	7	80	40	12	14	33	1.83
517986--518039	20	2.7	20	88	2	81	33	18	12	35	1.89
521610--521635	13	2.0	13	100	0	52	38	15	15	30	1.88
526009--526033	13	1.9	13	100	0	50	32	16	16	36	1.90
526042--526162	52	2.3	52	95	0	215	34	17	18	29	1.94
534265--534594	31	10.8	30	72	14	219	25	28	16	29	1.97
534264--534500	63	3.8	62	80	8	261	24	28	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534289--534533	125	2.0	125	79	6	273	24	29	16	29	1.97
534633--534996	27	11.9	27	71	20	197	21	36	13	29	1.91
534600--535023	33	13.5	33	74	16	318	20	36	13	29	1.91
534567--535029	125	3.7	123	82	9	525	21	35	13	29	1.92
534686--534969	155	1.8	156	85	7	407	20	35	13	30	1.91
534567--535024	60	7.5	61	79	13	374	21	35	13	29	1.92
534720--535023	95	3.2	95	80	9	345	21	35	13	29	1.92
535018--535135	33	3.7	33	85	6	147	28	37	16	17	1.92
535174--535539	43	8.1	43	81	11	437	24	25	18	31	1.98
535123--535592	92	5.1	91	91	2	724	24	25	17	31	1.97
535493--535646	52	2.9	53	79	4	184	25	23	14	36	1.93
536491--536515	13	1.9	13	100	0	50	36	16	16	32	1.90
536578--536602	13	1.9	13	100	0	50	32	16	16	36	1.90
542254--542284	16	1.9	16	93	0	53	51	12	12	22	1.74
546286--546317	3	10.7	3	100	0	64	31	34	0	34	1.58
546587--546635	23	2.1	23	96	0	89	42	16	18	22	1.88
547723--547778	21	2.7	21	91	0	85	41	19	10	28	1.85
547816--547877	32	1.9	33	93	3	108	33	9	20	35	1.86
547815--547898	19	4.7	19	76	18	99	33	9	20	36	1.85
547815--547927	51	2.2	52	91	1	183	33	9	18	38	1.84
547868--547935	32	2.1	32	88	0	100	33	11	16	38	1.85
547887--547911	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547949--548006	21	2.8	21	97	2	109	37	17	10	34	1.84
547993--548017	13	1.9	13	100	0	50	32	16	16	36	1.90
548026--548151	52	2.4	52	94	0	225	36	18	18	26	1.94
554115--554145	15	2.1	15	93	0	53	12	22	16	48	1.80
555949--555993	21	2.1	21	84	8	56	22	20	4	53	1.63
561647--561914	34	8.1	34	77	12	281	20	33	11	34	1.88
561647--561899	68	3.8	67	83	11	326	19	33	11	35	1.88
561771--561892	61	2.0	61	85	6	167	20	36	12	30	1.89
561803--561865	27	2.2	29	80	8	85	20	34	11	33	1.88
561905--562121	32	6.7	32	88	2	292	29	33	18	17	1.95
561905--562121	98	2.2	96	90	1	326	29	33	18	17	1.95
562127--562590	49	9.8	47	80	10	502	25	25	17	31	1.97
562126--562599	92	5.1	91	86	4	633	25	25	17	31	1.97
562315--562546	43	5.1	43	81	10	266	25	26	18	29	1.98
562500--562621	52	2.3	55	82	4	160	27	24	12	36	1.91
562508--562637	52	2.4	52	79	3	143	26	25	13	33	1.94
562551--562834	120	2.3	120	80	12	330	25	25	12	36	1.91
562795--563066	43	6.0	43	82	9	337	25	25	18	31	1.97
562886--563120	43	5.1	44	76	14	242	25	24	17	33	1.96
562794--563112	92	3.4	92	94	1	548	25	24	18	31	1.97
563804--563860	13	3.9	13	76	24	60	35	14	17	33	1.90
563784--563884	32	3.1	32	97	1	184	34	11	17	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563782--563879	19	5.8	18	71	28	90	33	12	17	36	1.87
563922--563946	13	1.9	13	100	0	50	32	16	16	36	1.90
563836--564019	86	2.2	85	83	8	223	35	16	15	33	1.90
563955--564061	52	2.1	52	90	0	169	34	16	18	29	1.94
574407--574525	42	2.8	42	88	0	175	8	44	2	44	1.47
574431--574516	24	3.8	24	70	17	85	10	43	2	44	1.51
581802--581930	52	2.5	52	96	0	231	30	17	17	34	1.93
581802--581950	52	2.9	51	89	4	219	31	17	17	33	1.93
581939--581963	13	1.9	13	100	0	50	36	16	16	32	1.90
582004--582070	33	2.0	33	88	0	98	40	14	11	32	1.83
582026--582050	13	1.9	13	100	0	50	32	16	16	36	1.90
582507--582535	14	2.1	14	93	6	51	82	6	6	3	0.93
583685--583722	16	2.3	17	86	4	51	44	23	5	26	1.74
583820--584040	30	7.1	29	78	18	207	23	28	15	33	1.95
583820--584040	94	2.4	94	94	3	383	23	28	15	33	1.95
583822--584040	63	3.5	61	77	18	193	23	28	15	32	1.95
584043--584164	27	4.3	27	74	13	100	21	36	12	30	1.90
584071--584396	34	10.0	34	78	11	371	19	34	11	34	1.87
584019--584389	61	5.8	61	86	8	501	20	35	11	32	1.88
584134--584411	68	4.2	68	88	6	444	20	34	10	34	1.87
584014--584411	129	3.1	128	86	9	549	20	34	11	33	1.89
584335--584411	34	2.3	34	84	4	102	22	36	10	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584402--584610	32	6.5	32	90	2	303	30	33	18	17	1.94
584624--585087	49	9.8	48	81	10	503	25	25	17	31	1.97
584623--585096	92	5.1	91	87	4	651	25	25	17	31	1.97
584623--585039	141	3.0	138	84	7	562	25	25	17	30	1.97
585048--585325	120	2.3	119	82	6	337	25	25	11	36	1.90
585292--585562	43	6.0	43	78	12	294	25	23	18	32	1.97
585291--585608	92	3.4	91	91	2	510	24	23	18	33	1.97
585526--585771	107	2.3	107	86	1	332	24	22	15	36	1.93
585518--585737	52	4.1	55	74	7	193	23	22	15	38	1.92
585528--585762	52	4.4	54	74	5	192	24	22	15	37	1.93
586387--586439	20	2.7	20	96	0	97	32	11	20	35	1.88
586428--586452	13	1.9	13	100	0	50	36	16	16	32	1.90
586408--586476	32	2.1	33	94	2	122	34	11	17	36	1.86
586492--586572	13	7.1	12	71	28	70	35	17	12	34	1.87
586493--586572	34	2.4	34	100	0	160	35	17	12	35	1.88
586581--586709	52	2.5	52	93	0	222	36	17	17	28	1.93
593075--593124	19	2.4	21	83	12	59	76	4	14	6	1.13
594909--594935	13	2.1	13	100	0	54	37	14	14	33	1.88
594976--595000	13	1.9	13	100	0	50	32	16	16	36	1.90
595009--595137	52	2.5	52	94	0	231	36	18	17	27	1.93
595593--595635	22	2.0	22	100	0	86	23	34	18	23	1.96
598279--598661	48	8.0	48	82	2	383	20	19	18	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598271--598665	96	4.1	96	81	1	443	20	19	18	42	1.90
598271--598657	144	2.7	144	82	2	447	20	19	18	42	1.90
598763--598959	84	2.3	84	80	3	218	20	26	14	38	1.91
600199--600396	79	2.5	78	81	3	218	29	16	28	24	1.97
600352--600423	28	2.6	27	82	8	74	23	19	34	22	1.96
600446--600580	51	2.6	51	82	6	166	33	12	26	27	1.93
600634--600751	51	2.4	49	82	13	145	34	11	22	30	1.90
603826--604445	55	11.0	55	86	8	711	24	19	28	27	1.99
603973--604115	28	5.2	28	60	21	68	18	18	32	31	1.95
605456--605519	1	64.0	1	76	0	56	0	4	7	87	0.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17