genome.fa.s8.2.7.7.80.10.50.1000.12.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  12  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)
5491031--5491061	3	10.3	3	100	0	62	67	0	0	32	0.91
5498466--5498503	18	2.1	18	90	9	60	26	0	0	73	0.83
5500097--5500140	21	2.2	20	83	4	52	43	2	2	52	1.26
5500161--5500202	8	5.2	8	94	0	75	50	0	0	50	1.00
5500143--5500202	24	2.5	24	83	2	77	43	0	3	53	1.17
5500890--5500932	20	2.2	19	87	4	59	13	13	0	72	1.13
5502977--5503038	3	20.0	3	90	6	97	66	1	1	30	1.11
5504102--5504135	16	2.1	16	88	0	50	5	23	5	64	1.38
5504367--5504395	14	2.0	15	93	6	51	20	0	27	51	1.47
5505683--5505758	35	2.2	35	90	0	116	53	11	2	31	1.51
5506909--5506945	19	2.0	19	94	5	67	40	0	5	54	1.24
5506910--5506952	19	2.4	18	85	11	61	44	0	6	48	1.29
5511122--5511203	32	2.6	32	82	0	101	51	19	2	26	1.59
5514676--5514758	4	20.8	4	100	0	166	50	25	0	24	1.49
5515718--5515751	17	1.9	18	88	5	52	47	8	2	41	1.50
5533153--5533241	28	3.2	28	77	1	81	26	24	23	24	2.00
5533346--5533425	26	3.1	26	80	7	99	38	25	21	15	1.92
5533619--5533738	27	4.5	26	78	6	78	18	15	24	42	1.88
5533621--5533883	81	3.3	80	84	3	321	20	14	19	45	1.85
5533634--5533907	27	10.2	27	82	7	258	22	13	17	46	1.82
5533621--5533885	54	4.9	53	82	3	289	20	14	19	45	1.85
5542081--5542180	28	3.6	28	81	4	123	33	23	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5542510--5542971	27	17.2	27	82	5	445	21	14	18	45	1.85
5554604--5554637	10	3.1	11	87	12	52	88	8	2	0	0.62
5556809--5556863	23	2.5	21	77	19	58	16	1	29	52	1.54
5561714--5561750	18	2.1	18	94	0	65	18	18	51	10	1.75
5562580--5562617	18	2.2	18	85	4	51	31	0	15	52	1.43
5564171--5564265	29	3.3	29	86	1	111	42	20	12	25	1.87
5564186--5564335	29	5.2	28	76	10	126	37	22	14	26	1.92
5567273--5567312	21	2.0	20	85	5	53	55	7	22	15	1.65
5569313--5569545	112	2.1	113	86	3	337	38	12	21	27	1.90
5569315--5569541	111	2.1	110	87	3	330	37	13	22	27	1.91
5576493--5576528	18	2.0	18	94	0	63	11	13	2	72	1.23
5579711--5579790	30	2.7	30	84	0	106	47	11	21	20	1.80
5598501--5598540	14	2.9	14	84	0	53	32	7	17	42	1.77
5598524--5598563	20	2.0	20	90	0	62	27	10	12	50	1.72
5598509--5598575	34	1.9	35	90	3	109	31	8	13	46	1.74
5598503--5598579	14	5.0	15	71	20	52	32	9	15	42	1.78
5598556--5598641	33	2.6	32	75	12	93	26	9	17	46	1.78
5601025--5601050	7	3.7	7	100	0	52	11	0	46	42	1.40
5601351--5601376	11	2.4	11	100	0	52	61	15	0	23	1.33
5601656--5601699	18	2.4	19	88	3	63	43	0	54	2	1.12
5602705--5602745	21	2.0	21	86	13	59	43	17	4	34	1.70
5604042--5604077	18	2.0	18	88	0	54	30	25	8	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5607417--5607508	39	2.4	39	81	3	105	30	21	22	25	1.99
5608637--5608675	16	2.5	16	91	4	62	25	0	41	33	1.56
5608652--5608693	23	1.9	21	90	9	66	19	0	45	35	1.50
5608593--5608693	22	4.9	21	73	21	88	22	0	42	34	1.54
5610132--5610177	24	1.9	24	91	8	76	28	43	0	28	1.55
5610580--5610604	12	2.1	12	100	0	50	24	8	8	60	1.52
5610632--5610671	17	2.4	17	88	12	57	52	2	10	35	1.48
5610979--5611036	26	2.2	26	93	0	98	39	13	3	43	1.61
5612589--5612628	21	1.9	21	84	0	53	37	15	40	7	1.75
5612816--5612862	10	4.7	10	94	5	78	31	0	6	61	1.21
5612807--5612862	20	2.8	21	86	10	66	30	0	5	64	1.16
5613002--5613093	43	2.1	43	84	4	114	22	17	31	28	1.97
5616203--5616287	44	1.9	45	88	7	129	21	28	21	29	1.98
5616309--5617159	44	19.6	44	70	10	418	28	25	19	27	1.99
5616264--5616988	173	4.2	174	91	1	1134	28	26	19	26	1.98
5616264--5616988	347	2.1	346	90	2	1139	28	26	19	26	1.98
5616264--5617115	347	2.5	348	86	2	1088	28	25	19	26	1.99
5616781--5617333	218	2.5	218	89	2	830	27	25	19	27	1.99
5616439--5617333	391	2.3	389	77	7	1015	28	25	19	27	1.99
5618586--5618636	7	7.4	7	86	4	59	9	9	1	78	1.04
5618592--5618635	20	2.2	20	87	0	61	11	9	2	77	1.08
5619514--5619562	26	1.9	25	83	4	62	12	12	6	69	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5619528--5619593	6	10.7	6	80	6	51	9	9	12	69	1.36
5625653--5625978	43	7.6	43	83	2	388	20	19	30	30	1.97
5637861--5637893	15	2.1	16	88	5	50	33	0	9	57	1.30
5638964--5638996	15	2.1	16	88	5	50	33	0	9	57	1.30
5639047--5639370	179	1.9	175	87	8	495	34	10	13	40	1.80
5641015--5641058	19	2.4	18	81	11	54	29	2	20	47	1.62
5643453--5643522	25	2.8	25	86	0	113	24	24	24	27	2.00
5650980--5651121	25	5.6	25	87	1	158	26	23	21	28	1.99
5655937--5655985	16	3.1	16	87	0	80	34	4	36	24	1.75
5655964--5656054	45	2.0	44	89	6	139	31	5	28	34	1.80
5656198--5656239	15	2.7	16	82	14	52	52	2	0	45	1.13
5656207--5656248	15	2.9	15	82	10	52	52	0	0	47	1.00
5656414--5656461	26	1.9	25	84	16	64	52	2	0	45	1.12
5656369--5656597	92	2.5	92	83	8	236	47	3	3	44	1.38
5660421--5660574	25	6.2	24	84	5	157	23	22	20	33	1.97
5660422--5660563	75	1.9	74	82	4	178	23	21	21	33	1.97
5664749--5664790	19	2.2	20	86	4	59	4	28	14	52	1.62
5667864--5668040	42	4.2	42	88	2	250	29	19	19	31	1.96
5671152--5671217	26	2.5	26	90	0	105	25	10	9	54	1.64
5683619--5683649	3	10.3	3	100	0	62	67	0	0	32	0.91
5685083--5685189	42	2.5	42	75	8	110	21	20	34	23	1.97
5691804--5691915	42	2.7	42	83	2	118	23	21	34	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5705630--5705688	31	1.9	30	86	10	84	62	10	13	13	1.54
5706147--5706189	20	2.1	21	86	4	61	55	4	0	39	1.20
5706803--5706847	22	2.0	22	95	0	81	53	17	13	15	1.73
5724882--5724925	15	2.8	16	80	13	56	40	9	29	20	1.83
5736009--5736079	31	2.2	32	87	5	99	35	5	4	54	1.43
5740327--5740651	81	4.0	81	99	0	641	36	8	4	50	1.55
5744595--5744631	18	2.1	18	100	0	74	51	0	5	43	1.24
5754008--5754255	50	4.8	50	78	6	221	27	20	29	23	1.99
5756054--5756117	24	2.7	22	81	15	67	71	0	25	3	1.00
5756074--5756114	15	2.8	15	85	3	57	70	0	26	2	0.99
5756063--5756126	10	6.5	10	75	12	53	71	0	25	3	1.00
5758116--5758217	40	2.5	40	92	3	161	35	22	1	40	1.65
5758115--5758204	13	6.8	13	71	18	69	35	22	2	40	1.66
5760313--5760346	17	2.0	17	94	0	59	17	8	38	35	1.81
5760462--5760603	71	2.0	71	97	0	266	26	5	22	45	1.74
5762758--5762789	13	2.5	13	100	0	64	59	0	0	40	0.97
5771605--5771738	40	3.5	39	77	10	141	24	23	19	32	1.97
5771638--5771772	40	3.7	36	77	8	119	22	21	20	34	1.96
5771605--5771772	75	2.2	76	86	1	221	24	22	19	33	1.97
5771639--5771805	36	4.6	36	78	7	131	22	20	19	36	1.95
5775637--5775676	14	2.9	15	82	14	50	25	15	25	35	1.94
5787125--5787178	27	2.0	27	100	0	108	40	7	3	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5790051--5790136	28	3.1	28	76	6	84	31	20	16	31	1.95
5791224--5791327	53	2.0	53	84	0	136	37	15	22	25	1.93
5791505--5791568	28	2.3	28	83	5	76	35	14	21	28	1.92
5792359--5792396	18	2.1	19	85	14	53	47	0	23	28	1.52
5793023--5793132	35	3.2	34	71	5	87	27	23	20	29	1.99
5795894--5795919	3	8.7	3	100	0	52	0	30	0	69	0.89
5800396--5800464	36	1.9	36	100	0	138	95	4	0	0	0.26
5800394--5800466	38	1.9	38	100	0	146	95	4	0	0	0.25
5800395--5800465	37	1.9	37	100	0	142	95	4	0	0	0.25
5800391--5800466	1	76.0	1	97	0	125	96	3	0	0	0.24

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