genome.fa.s8.2.7.7.80.10.50.1000.15.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   
          129   130   131   132   133   134   135   

This is table  15  of  135  ( 16172 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)
6376299--6376464	54	3.1	53	83	1	197	18	18	20	42	1.89
6390227--6390267	18	2.5	17	81	14	50	34	24	0	41	1.55
6390996--6391035	20	2.0	20	85	0	53	52	12	0	35	1.39
6392224--6392404	98	1.8	98	93	0	317	37	25	9	27	1.88
6394809--6395147	45	7.7	45	73	16	189	25	23	21	28	1.99
6394660--6395159	218	2.3	217	89	0	766	27	22	21	29	1.99
6407428--6407630	61	3.2	61	64	14	156	47	9	17	25	1.78
6407412--6407675	131	2.0	132	97	1	503	47	10	18	23	1.80
6409390--6409648	76	3.4	76	80	2	306	30	19	22	27	1.98
6413562--6414647	334	3.2	334	83	3	1312	32	13	16	37	1.88
6420858--6420935	27	2.9	28	83	7	90	24	8	14	52	1.69
6429755--6429915	33	4.9	33	86	0	223	27	19	22	31	1.98
6429755--6429915	66	2.4	66	90	2	252	27	19	22	31	1.98
6435695--6435733	16	2.4	16	86	0	51	20	0	5	74	1.01
6435822--6435860	11	3.5	11	85	3	51	17	0	10	71	1.12
6436212--6436379	87	1.9	88	85	1	230	29	4	15	51	1.62
6439875--6440234	88	4.1	86	79	5	335	34	14	10	41	1.79
6439873--6440215	176	2.0	174	81	3	411	32	14	9	42	1.78
6442244--6442402	33	4.8	33	84	3	221	28	18	21	30	1.97
6442244--6442402	66	2.4	66	90	0	255	28	18	21	30	1.97
6449944--6449982	19	2.1	19	95	0	69	0	46	10	43	1.37
6454064--6454173	45	2.6	44	81	8	131	31	29	5	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6454152--6454189	16	2.4	16	90	0	58	34	34	0	31	1.58
6465390--6465630	41	5.9	41	73	7	184	30	29	19	21	1.97
6465390--6465644	82	3.1	81	80	5	262	29	30	18	21	1.97
6465404--6465639	123	1.9	124	79	4	262	29	29	19	21	1.97
6468100--6468134	14	2.6	14	90	4	54	31	8	8	51	1.63
6474666--6474708	16	2.7	16	85	0	50	48	11	18	20	1.79
6476458--6476665	27	7.7	27	85	0	245	41	21	18	18	1.90
6476458--6477067	54	11.1	54	80	6	627	43	18	19	18	1.88
6476458--6477078	81	7.6	80	80	9	574	43	19	18	19	1.89
6476667--6477078	27	15.3	27	83	5	410	43	17	19	19	1.88
6477410--6477494	30	2.9	30	85	3	120	29	24	20	25	1.99
6478296--6478331	17	2.1	17	94	0	63	47	11	25	16	1.79
6484007--6484658	27	24.3	26	81	6	619	42	18	18	19	1.89
6484010--6484658	188	3.5	188	89	3	891	43	18	18	19	1.89
6484836--6484910	26	2.9	26	81	0	69	18	24	22	34	1.96
6485016--6485106	28	3.1	28	83	7	110	26	25	20	27	1.99
6485044--6485104	30	2.0	30	93	0	104	26	27	21	24	1.99
6486176--6486233	28	2.0	29	80	9	66	18	6	18	55	1.65
6486176--6486236	29	2.1	29	82	11	72	19	6	18	55	1.63
6488412--6488452	21	1.9	22	85	5	57	56	14	0	29	1.39
6501037--6501090	25	2.2	25	83	12	67	55	0	3	40	1.17
6501654--6501695	16	2.7	15	85	7	57	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6501757--6501818	30	2.1	30	84	6	81	50	11	8	30	1.67
6508137--6508198	27	2.3	26	83	2	70	43	19	17	19	1.88
6508364--6508430	22	3.1	21	74	16	73	14	20	19	44	1.86
6508406--6508520	46	2.5	46	88	0	167	17	20	21	40	1.92
6511354--6511400	20	2.4	19	82	10	58	53	10	4	31	1.55
6530913--6530974	28	2.2	28	94	2	106	29	22	24	24	1.99
6531080--6531156	26	3.0	25	81	7	91	37	18	23	20	1.94
6531348--6531770	27	15.7	27	84	1	499	16	18	20	43	1.88
6543911--6543944	7	4.7	7	85	7	50	14	2	0	82	0.79
6544834--6544939	41	2.6	41	83	5	151	19	28	17	33	1.95
6545109--6545183	37	2.0	37	100	0	150	29	5	22	42	1.75
6554719--6554828	41	2.7	41	88	4	152	21	30	14	32	1.93
6554760--6554850	41	2.2	41	84	3	112	23	26	15	35	1.94
6557004--6557216	106	2.0	106	85	1	284	30	18	13	38	1.89
6562505--6562559	26	2.2	24	84	9	67	69	0	16	14	1.20
6568484--6568514	14	2.2	14	94	0	53	41	12	0	45	1.42
6574030--6574130	50	2.0	50	82	0	121	19	30	22	26	1.98
6590547--6590578	16	2.0	16	93	0	55	25	9	25	40	1.85
6590634--6590720	27	3.3	26	76	13	88	18	20	22	37	1.94
6594790--6594974	43	4.3	43	89	1	282	28	31	18	20	1.97
6594767--6594974	86	2.4	86	87	4	294	27	30	18	23	1.98
6598032--6598091	24	2.5	24	89	2	95	58	8	10	23	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6599690--6599723	16	2.1	16	88	0	50	44	17	0	38	1.49
6599783--6599808	13	2.0	13	100	0	52	53	0	0	46	1.00
6600268--6600300	14	2.3	15	94	5	59	36	33	0	30	1.58
6600689--6601016	110	3.0	110	87	4	446	28	25	18	26	1.98
6600849--6601168	150	2.1	151	91	2	518	29	27	18	25	1.98
6600959--6601057	41	2.4	41	94	1	173	31	28	18	22	1.97
6600999--6601462	112	4.2	111	89	2	698	28	26	19	25	1.99
6600726--6601277	261	2.1	261	89	1	822	28	27	19	25	1.99
6600989--6601462	111	4.3	111	88	2	684	27	27	19	25	1.99
6603590--6603648	23	2.6	22	82	10	75	44	20	3	32	1.68
6608704--6608761	23	2.6	22	82	12	75	44	20	3	31	1.68
6610723--6610937	99	2.2	99	83	5	265	34	18	21	26	1.96
6612511--6612608	50	2.0	50	95	0	178	28	25	5	40	1.77
6615875--6616012	69	2.0	69	98	0	267	43	7	6	42	1.58
6615989--6616026	20	1.9	19	85	15	51	50	0	0	50	1.00
6616090--6616148	30	2.0	30	86	6	84	47	11	8	32	1.70
6623139--6623204	12	5.5	12	75	10	55	18	3	7	71	1.23
6629466--6629499	4	8.8	4	87	6	52	20	2	0	76	0.92
6629467--6629498	15	2.1	15	94	0	55	21	3	0	75	0.95
6631133--6631159	6	4.5	6	100	0	54	14	0	0	85	0.61
6634743--6634775	2	16.5	2	100	0	66	0	0	48	51	1.00
6635378--6635498	41	3.0	41	80	8	140	28	19	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6645589--6645660	6	12.2	6	91	2	119	80	2	0	16	0.83
6647539--6647581	18	2.2	19	80	16	52	48	2	2	46	1.27
6647549--6647590	18	2.3	18	84	8	50	57	0	2	40	1.12
6647605--6647652	22	2.3	21	85	7	62	27	4	8	60	1.44
6650080--6650137	30	1.9	30	86	6	82	48	8	6	36	1.61
6654094--6654170	28	2.6	30	85	4	77	28	22	24	24	1.99
6654121--6654174	28	1.9	28	100	0	108	27	20	25	25	1.99
6654291--6654361	26	2.7	26	88	0	97	38	21	22	18	1.94
6654535--6654703	27	6.3	27	84	4	189	17	16	20	45	1.85
6654535--6654703	54	3.1	55	82	6	211	17	16	20	45	1.85
6654533--6654703	81	2.1	81	82	6	213	18	16	19	45	1.86
6655593--6655751	83	1.9	83	100	0	318	36	23	14	25	1.93
6657808--6657848	20	2.0	20	85	0	55	26	12	24	36	1.91
6659991--6660035	23	2.0	23	86	0	63	22	0	6	71	1.09
6662963--6663048	43	2.0	43	95	0	154	29	15	15	40	1.87
6664741--6664870	36	3.5	36	73	10	118	26	23	23	26	2.00
6664700--6665000	76	4.0	75	82	6	288	30	22	21	25	1.99
6664744--6665000	75	3.4	75	85	4	329	31	22	22	24	1.99
6668622--6668665	23	1.9	22	82	17	54	38	22	0	38	1.55
6668764--6668885	23	5.3	23	86	0	172	32	23	21	22	1.98
6669111--6669149	18	2.2	17	86	13	53	46	20	0	33	1.51
6671512--6671635	49	2.6	49	80	5	155	32	28	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6673508--6673551	23	1.9	22	82	17	54	38	22	0	38	1.55
6673620--6673717	49	2.0	49	96	4	180	36	20	22	20	1.95
6673698--6673750	23	2.3	23	96	0	97	30	28	20	20	1.98
6673992--6674032	22	1.9	22	85	5	57	53	4	0	41	1.22
6676746--6678638	334	5.7	334	86	3	2409	31	14	16	37	1.89
6683233--6683882	336	1.9	334	85	3	876	29	14	17	37	1.90
6685513--6685545	16	2.1	16	100	0	66	24	18	12	45	1.83
6686869--6686939	35	2.0	35	100	0	142	32	11	16	39	1.84
6688118--6688327	99	2.1	99	84	3	280	33	15	22	28	1.95
6688158--6688370	99	2.2	99	85	3	277	31	19	22	26	1.97

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   
          129   130   131   132   133   134   135