genome.fa.s5.2.7.7.80.10.50.1000.15.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   

This is table  15  of  85  ( 10117 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)
4909847--4909882	7	5.1	7	100	0	72	13	0	0	86	0.58
4909847--4909890	21	2.1	21	86	0	61	18	2	0	79	0.83
4910284--4910327	17	2.4	19	88	11	65	40	31	15	11	1.83
4924172--4924207	7	5.1	7	100	0	72	13	0	0	86	0.58
4924172--4924215	21	2.1	21	86	0	61	18	2	0	79	0.83
4924609--4924652	17	2.4	19	88	11	65	40	31	15	11	1.83
4925509--4925585	35	2.2	35	97	2	147	32	9	6	51	1.59
4926551--4926693	71	2.0	72	98	1	279	46	6	4	42	1.50
4944428--4944553	63	2.0	63	96	0	234	29	21	16	32	1.95
4946262--4946295	18	2.0	17	88	11	52	44	8	0	47	1.34
4946670--4946709	18	2.2	18	86	4	53	50	2	17	30	1.59
4946769--4946842	36	2.1	36	97	0	139	40	8	12	39	1.72
4948884--4948959	23	3.3	23	84	0	116	19	22	27	30	1.98
4955270--4955294	8	3.1	8	100	0	50	48	24	12	16	1.79
4956160--4956219	30	2.0	31	83	3	77	18	38	0	43	1.50
4959597--4959642	16	3.0	16	71	12	51	41	0	32	26	1.56
4959863--4959899	9	4.1	9	92	0	65	29	10	13	45	1.77
4979736--4979964	69	3.3	69	88	1	307	17	21	24	36	1.95
4979975--4980253	139	2.0	140	99	0	551	36	15	17	31	1.90
4980443--4980488	20	2.3	19	85	10	65	13	45	28	13	1.80
4981830--4981875	20	2.3	19	85	10	65	13	45	28	13	1.80
4988064--4988111	25	1.9	25	86	0	69	43	20	18	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988086--4988214	64	2.0	64	82	5	154	34	21	20	24	1.97
5008593--5008690	37	2.7	38	77	6	112	55	3	2	39	1.27
5008628--5008692	11	6.1	11	72	18	57	55	1	1	41	1.18
5008608--5008656	25	1.9	26	84	12	66	53	6	2	38	1.38
5008668--5008945	138	2.0	139	99	0	549	42	15	7	35	1.74
5019195--5019273	38	2.1	38	100	0	158	32	26	12	27	1.93
5019806--5019874	15	4.6	15	83	0	84	43	17	39	0	1.49
5019825--5019965	15	8.8	15	73	12	93	53	14	31	0	1.42
5019869--5019967	18	5.7	18	78	7	96	55	13	31	0	1.38
5019825--5019946	33	3.9	33	83	9	148	52	15	31	0	1.43
5019824--5019965	51	2.9	51	86	6	179	52	14	32	0	1.42
5028456--5028508	23	2.4	22	74	3	52	9	20	1	67	1.28
5028501--5028539	18	2.2	18	85	0	51	7	23	2	66	1.30
5041465--5041516	19	2.7	19	93	0	95	38	15	9	36	1.80
5044061--5044110	26	1.9	26	88	8	75	44	10	16	30	1.80
5046878--5046945	26	2.6	26	83	0	91	26	22	20	30	1.98
5046929--5047134	54	3.8	54	85	2	261	29	18	13	38	1.89
5046922--5047151	108	2.1	107	78	3	246	29	18	13	39	1.88
5047337--5047420	23	3.7	23	77	1	71	27	15	14	42	1.85
5047493--5047547	23	2.4	24	90	6	87	18	16	18	47	1.83
5047861--5047898	19	2.0	20	89	5	60	10	42	15	31	1.81
5055909--5055956	9	5.2	9	82	10	53	56	2	2	39	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5056045--5056100	10	5.3	11	77	16	55	51	0	3	44	1.18
5060365--5060455	40	2.4	36	84	14	105	13	3	26	57	1.52
5060365--5060445	40	2.0	40	97	0	153	14	3	25	55	1.56
5063702--5063773	27	2.6	28	83	12	103	45	6	0	47	1.29
5063821--5063921	27	3.7	27	81	5	98	27	25	29	16	1.97
5064004--5064043	11	3.7	11	86	6	64	70	0	30	0	0.88
5064003--5064041	21	1.9	20	94	5	69	69	0	30	0	0.89
5073500--5073529	15	1.9	16	93	6	53	26	0	0	73	0.84
5072746--5073692	480	2.0	480	81	6	1128	31	13	7	47	1.70
5074084--5074174	3	31.3	3	71	18	52	0	31	1	67	0.98
5074054--5074167	47	2.3	50	82	10	128	0	32	0	66	0.98
5074104--5074224	37	3.0	39	80	15	138	0	32	0	66	0.97
5074070--5074217	44	3.2	50	79	15	126	0	33	0	65	0.98
5074170--5074237	34	2.0	35	88	8	104	0	36	0	63	0.95
5074083--5074235	80	2.0	74	83	14	190	0	33	0	65	0.98
5074083--5074229	78	1.9	76	86	9	208	0	33	0	65	0.97
5074143--5074234	19	5.1	19	69	19	54	0	33	0	66	0.92
5074265--5074335	27	2.6	27	93	0	115	15	26	29	28	1.96
5074392--5074463	28	2.5	29	89	10	105	45	0	11	43	1.39
5074626--5074667	17	2.4	17	92	4	66	57	9	7	26	1.56
5076163--5076193	6	5.0	6	96	4	53	48	0	35	16	1.46
5078454--5078515	31	2.0	31	87	6	90	29	1	1	67	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5078459--5078526	31	2.2	31	82	10	86	29	1	1	67	1.08
5082512--5082557	18	2.6	18	92	0	74	21	23	10	43	1.84
5085607--5085712	37	2.7	39	77	7	117	35	25	14	24	1.93
5086545--5086606	9	6.7	9	74	18	56	1	20	4	72	1.12
5086633--5086718	37	2.4	35	80	16	81	37	3	2	56	1.29
5088652--5088717	13	5.5	13	72	20	72	50	12	0	37	1.40
5088652--5088720	23	3.0	24	91	8	124	50	11	0	37	1.39
5088736--5088784	18	2.7	18	90	0	71	51	6	8	34	1.57
5090153--5090362	111	1.9	111	89	2	323	43	7	21	27	1.79
5090426--5090459	5	6.8	5	100	0	68	41	0	0	58	0.98
5090481--5090546	24	2.8	23	84	11	80	75	3	18	3	1.06
5091852--5091898	24	2.0	24	84	16	62	31	0	17	51	1.46
5101247--5101309	32	1.9	33	84	15	87	22	6	1	69	1.19
5102630--5102666	18	2.1	18	89	0	56	59	5	10	24	1.52
5104609--5104849	121	2.0	121	99	0	473	29	17	20	33	1.95
5105276--5105336	18	3.4	18	79	0	77	39	22	8	29	1.83
5105305--5105351	18	2.8	17	87	9	62	38	25	6	29	1.81
5109713--5109802	43	2.1	43	83	4	110	28	18	23	28	1.98
5115079--5115124	20	2.3	20	85	10	60	36	0	4	58	1.18
5115562--5115613	20	2.6	21	82	14	65	36	0	5	57	1.23
5117011--5117035	12	2.1	12	100	0	50	40	16	8	36	1.77
5119751--5119808	11	5.4	11	78	17	68	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119756--5119828	23	3.4	22	81	9	80	56	0	1	42	1.08
5122098--5122229	64	2.0	66	82	8	164	12	21	18	46	1.83
5132497--5132526	2	15.0	2	100	0	60	50	0	0	50	1.00
5137833--5137863	16	2.0	15	93	6	53	25	32	19	22	1.97
5157522--5157687	88	1.9	89	94	2	298	35	16	21	26	1.94
5167258--5167524	133	2.0	134	99	0	527	50	9	5	33	1.59
5173485--5173544	31	1.9	31	89	0	93	31	11	10	46	1.73
5174085--5174115	2	15.5	2	100	0	62	48	0	0	51	1.00
5175175--5175208	18	1.9	18	88	5	52	61	8	0	29	1.26
5176804--5176837	16	2.1	16	88	0	50	35	20	2	41	1.68
5177708--5178516	153	5.4	151	83	8	977	30	10	8	50	1.66
5198240--5198272	16	2.0	17	88	5	50	51	0	0	48	1.00
5200076--5200101	5	5.2	5	100	0	52	23	0	19	57	1.40
5206524--5206558	2	17.5	2	87	0	52	45	0	0	54	0.99
5207959--5207984	4	6.5	4	100	0	52	23	0	0	76	0.78
5208591--5208629	3	12.3	3	89	10	60	33	2	0	64	1.08
5213935--5213990	28	2.0	29	92	3	96	60	1	0	37	1.07
5214032--5214073	22	1.9	22	90	0	66	33	0	33	33	1.58
5214023--5214166	52	2.9	51	79	12	135	38	0	29	31	1.57
5214075--5214166	22	4.2	22	86	8	125	43	0	27	29	1.55
5214097--5214164	12	6.0	12	68	13	54	44	0	25	30	1.54
5216726--5216762	2	18.5	2	100	0	74	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5228325--5228474	76	2.0	76	86	2	212	19	24	16	40	1.90
5233002--5233110	47	2.3	47	82	7	123	22	23	22	30	1.99
5233028--5233213	49	3.8	48	78	3	196	20	30	20	29	1.98
5233028--5233206	96	1.8	98	82	5	229	20	30	20	29	1.98
5238542--5238685	45	3.2	45	79	3	137	36	22	13	27	1.92
5240395--5240438	23	1.9	23	90	0	70	38	4	9	47	1.56
5240913--5240979	24	2.6	26	93	6	111	40	11	0	47	1.40
5241751--5241806	20	2.7	21	80	5	78	50	0	41	8	1.34
5249004--5249034	12	2.6	12	94	0	53	61	19	0	19	1.35
5249177--5249238	3	20.7	3	100	0	124	67	32	0	0	0.91

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85