genome.fa.s12.2.7.7.80.10.50.1000.18.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   

This is table  18  of  128  ( 15303 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)
5182589--5182628	21	1.9	21	94	0	71	35	10	22	32	1.87
5191342--5191399	20	2.9	19	75	12	55	55	6	5	32	1.49
5196320--5196351	16	2.0	16	93	0	55	25	3	0	71	1.00
5196714--5196760	24	1.9	25	82	4	60	55	6	0	38	1.26
5199411--5199496	9	9.4	9	83	7	102	39	25	10	24	1.87
5199637--5199666	13	2.3	13	100	0	60	16	0	43	40	1.48
5202812--5202861	17	2.9	17	82	5	57	74	0	8	18	1.06
5203700--5204032	44	7.6	45	76	5	263	28	23	18	29	1.98
5203700--5204032	88	3.8	88	79	2	341	28	23	18	29	1.98
5204079--5204655	50	11.5	50	74	3	246	26	20	21	31	1.98
5204175--5205315	100	11.4	100	87	1	1554	25	21	20	31	1.98
5212031--5212095	3	21.7	3	73	6	51	61	7	3	27	1.38
5212068--5212100	15	2.1	16	88	5	50	69	3	0	27	1.03
5221033--5221126	46	2.0	46	97	0	179	40	10	11	37	1.77
5223488--5223574	35	2.5	34	92	5	140	54	10	3	32	1.51
5224537--5224600	28	2.3	28	84	7	85	54	3	1	40	1.25
5238437--5238556	63	1.9	63	87	0	177	25	25	19	29	1.98
5240807--5240841	18	2.0	18	88	5	54	34	2	5	57	1.37
5243268--5243298	2	16.0	2	93	6	55	51	0	0	48	1.00
5245520--5245556	18	2.1	18	100	0	74	43	29	21	5	1.75
5254292--5254345	16	3.4	16	92	0	81	29	35	1	33	1.69
5254749--5254825	19	3.7	19	67	16	55	28	1	3	66	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5256803--5256966	4	41.0	4	98	0	319	25	0	24	50	1.54
5256958--5258172	327	3.7	327	95	0	2148	32	12	26	27	1.93
5258353--5258411	25	2.4	25	91	0	91	23	25	20	30	1.98
5259726--5259835	25	4.4	24	82	5	112	23	21	20	33	1.97
5259726--5259864	50	2.8	50	80	2	127	25	19	22	33	1.97
5259726--5259864	75	1.9	75	81	0	170	25	19	22	33	1.97
5261514--5261761	45	5.5	45	72	8	148	23	16	14	44	1.86
5261546--5261758	89	2.4	90	78	3	207	24	16	15	43	1.86
5274520--5275109	213	2.8	213	98	0	1135	25	30	14	29	1.95
5276044--5276414	132	2.8	132	90	2	575	27	23	18	29	1.98
5276346--5276591	44	5.6	44	67	14	148	28	24	17	30	1.97
5276246--5276533	88	3.3	88	67	16	234	27	25	17	30	1.97
5276390--5276673	132	2.2	132	88	0	444	26	24	17	30	1.97
5276245--5276591	176	2.0	176	91	1	561	27	24	17	29	1.97
5276083--5276667	308	1.9	308	89	0	902	27	24	17	30	1.97
5276781--5277518	87	8.5	87	90	0	1142	23	22	23	30	1.99
5276811--5276948	42	3.2	43	65	17	113	26	25	22	25	2.00
5276770--5277519	261	2.9	260	94	0	1272	23	22	23	30	1.99
5279132--5279241	47	2.4	46	82	7	118	10	10	7	72	1.27
5279151--5279226	34	2.3	32	84	6	98	11	9	7	71	1.32
5290239--5290280	21	2.0	22	85	4	59	61	16	0	21	1.34
5296208--5296257	19	2.7	19	79	11	59	70	0	24	6	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296352--5296397	23	2.0	23	100	0	92	52	13	17	17	1.75
5299564--5299610	15	3.1	15	81	9	51	42	0	2	55	1.12
5321436--5321584	74	2.0	74	97	0	280	41	23	9	25	1.84
5322049--5322100	27	1.9	27	88	0	77	15	19	38	26	1.91
5323003--5323064	31	2.0	31	90	0	97	19	17	25	37	1.94
5326971--5327034	24	2.6	25	70	2	67	14	23	18	43	1.86
5327081--5327125	24	1.9	23	86	4	63	22	22	20	35	1.96
5327080--5327131	24	2.2	23	79	3	59	19	23	19	38	1.93
5327090--5327193	24	4.2	24	75	8	86	21	25	18	34	1.96
5327114--5327205	25	3.7	25	76	4	80	21	26	19	32	1.97
5336541--5336583	23	1.9	23	85	4	61	62	4	2	30	1.28
5358097--5358128	16	2.0	16	93	0	55	25	15	0	59	1.36
5358356--5358546	51	3.8	51	75	11	185	31	27	16	24	1.97
5358354--5358538	101	1.8	102	87	3	275	31	26	17	24	1.97
5363338--5363398	20	3.3	18	76	13	61	49	4	3	42	1.40
5364548--5364788	120	2.0	121	99	0	475	43	9	10	35	1.73
5368126--5368182	27	2.0	29	83	12	75	35	26	5	33	1.79
5370584--5370880	63	4.7	63	85	1	353	31	28	19	21	1.97
5371447--5371498	18	2.9	18	77	5	61	78	0	17	3	0.89
5371447--5371499	7	7.4	7	79	12	54	79	0	16	3	0.88
5375266--5375318	26	2.0	26	96	0	97	18	22	32	26	1.97
5375292--5375529	85	2.8	83	83	7	282	23	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5375295--5375520	42	5.4	42	74	12	180	22	17	25	34	1.96
5391062--5391137	40	1.9	40	83	0	98	25	10	31	32	1.89
5391117--5391345	104	2.2	104	84	3	307	31	17	23	28	1.96
5395374--5396277	46	19.7	46	99	0	1799	41	30	8	19	1.81
5396263--5396308	22	2.1	21	84	11	58	58	17	4	19	1.55
5397473--5397508	17	2.1	17	94	0	63	69	11	8	11	1.37
5399074--5399134	28	2.2	29	80	14	74	29	11	9	49	1.71
5401068--5401117	11	4.6	11	76	14	50	76	0	22	2	0.89
5401068--5401117	16	3.1	16	80	8	57	76	0	22	2	0.89
5401071--5401116	22	2.1	22	88	8	67	76	0	21	2	0.90
5406438--5406479	21	2.0	21	85	0	57	42	16	0	40	1.48
5409694--5409733	21	1.9	21	94	0	71	35	15	25	25	1.94
5421814--5421874	25	2.6	23	80	17	63	44	0	32	22	1.54
5423220--5423258	2	19.5	2	94	0	69	0	51	0	48	1.00
5428099--5428170	23	3.2	23	86	9	112	26	13	11	48	1.76
5434293--5434377	27	3.2	26	73	9	73	37	30	7	24	1.82
5434299--5434449	54	2.8	54	80	7	182	31	29	13	26	1.94
5434303--5434450	27	5.5	27	75	3	136	30	29	13	26	1.94
5443833--5443998	35	4.5	35	73	15	118	28	24	16	29	1.97
5446170--5446265	30	3.2	29	75	12	70	26	22	7	43	1.79
5456647--5456684	20	1.9	20	89	10	60	57	0	0	42	0.98
5456668--5456700	15	2.1	16	88	11	50	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5456661--5456712	26	2.0	25	85	3	68	69	0	1	28	0.99
5469346--5469395	19	2.6	19	81	6	66	38	28	4	30	1.75
5470661--5470689	13	2.2	13	100	0	58	41	20	10	27	1.85
5479188--5479226	12	3.5	11	90	10	62	61	0	0	38	0.96
5483897--5483943	24	2.0	24	83	4	60	55	2	2	40	1.24
5488657--5488683	13	2.1	13	100	0	54	0	14	0	85	0.61
5491718--5491778	24	2.5	24	81	7	70	31	34	11	22	1.90
5491827--5491950	32	3.9	32	84	0	167	20	12	28	37	1.90
5491961--5492034	23	3.2	23	80	0	85	33	18	20	27	1.96
5497224--5497353	43	3.0	43	73	12	131	23	18	25	32	1.97
5502861--5503020	43	3.8	41	76	8	117	31	24	14	29	1.94
5502908--5503016	42	2.6	43	79	5	114	33	24	14	27	1.95
5508018--5508146	54	2.4	53	78	7	134	27	23	26	22	1.99
5521474--5521511	19	2.0	19	100	0	76	36	10	15	36	1.82
5528015--5528059	20	2.3	20	85	11	58	24	6	2	66	1.27
5532244--5532272	12	2.4	12	100	0	58	44	24	13	17	1.85
5534987--5535024	2	19.0	2	94	0	67	2	0	47	50	1.15
5551008--5551054	10	4.6	10	77	12	51	61	2	2	34	1.20
5551012--5551054	22	2.0	21	86	4	59	58	2	2	37	1.24
5551390--5551451	27	2.3	26	83	2	70	20	19	27	32	1.97
5552922--5552948	12	2.2	12	100	0	54	51	0	0	48	1.00
5553659--5553702	23	1.9	23	90	0	70	61	4	2	31	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5553663--5553705	11	3.8	11	80	17	52	65	2	2	30	1.18
5556589--5556712	29	4.2	28	72	15	106	30	20	23	25	1.98
5567386--5567435	19	2.5	20	83	3	75	10	28	22	40	1.86
5570675--5570756	36	2.2	39	78	10	89	15	18	9	56	1.66
5573607--5573686	37	2.2	35	84	4	97	70	2	7	20	1.24
5576801--5576828	12	2.3	12	100	0	56	42	0	7	50	1.30
5580536--5580815	27	10.4	26	84	4	328	43	20	16	18	1.88
5580535--5580830	54	5.5	53	85	6	366	42	20	16	19	1.89
5595815--5595890	6	12.3	6	86	10	64	72	0	2	25	0.98
5595830--5595892	3	21.3	3	84	9	85	69	0	1	28	0.97

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128