genome.fa.s8.2.7.7.80.10.50.1000.13.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  13  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)
5807496--5807536	7	5.9	7	100	0	82	0	12	0	87	0.53
5811255--5811394	68	2.1	68	95	0	253	24	7	22	45	1.78
5812739--5812846	51	2.1	51	91	3	173	42	10	15	31	1.80
5815856--5815944	27	3.3	27	81	9	110	43	17	20	17	1.88
5816119--5816172	26	2.1	26	92	0	90	14	20	24	40	1.90
5816148--5816233	45	1.9	45	92	0	145	13	15	30	40	1.86
5816320--5816381	28	2.2	28	94	0	106	22	24	24	29	1.99
5816335--5816416	28	2.9	28	83	0	92	20	30	26	21	1.98
5820840--5820951	34	3.4	33	81	9	138	39	0	11	49	1.39
5821011--5821649	125	5.1	125	87	6	879	35	17	18	28	1.93
5824555--5824603	25	1.9	25	84	12	64	57	4	2	36	1.30
5824551--5824607	24	2.3	23	78	18	62	52	3	1	42	1.28
5826803--5826867	30	2.2	30	88	0	94	35	3	30	30	1.73
5827670--5827721	22	2.4	22	83	6	61	55	11	7	25	1.61
5827704--5827741	17	2.2	17	86	9	51	63	7	7	21	1.47
5830573--5830653	19	4.3	19	71	6	65	35	30	17	16	1.92
5830573--5830685	38	2.9	38	78	3	102	32	28	20	18	1.96
5831803--5831939	25	5.4	25	75	7	134	34	19	12	33	1.89
5831782--5831953	50	3.4	49	81	7	168	34	21	13	29	1.92
5831868--5831948	25	3.2	25	72	16	78	33	23	11	32	1.90
5839774--5839876	27	3.7	29	76	8	88	29	18	19	33	1.96
5839967--5840068	29	3.4	29	69	7	87	28	28	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5839931--5840129	61	3.3	59	84	2	227	29	25	14	30	1.94
5840260--5840403	53	2.7	53	80	6	148	28	25	13	33	1.93
5869188--5869316	44	3.0	43	73	13	129	24	18	26	31	1.98
5873392--5873420	13	2.1	14	93	6	51	68	13	6	10	1.37
5873538--5873575	11	3.5	11	88	0	58	26	42	2	28	1.69
5875736--5875797	29	2.1	30	93	3	108	24	3	14	58	1.51
5875919--5875948	11	2.7	11	89	0	51	63	3	0	33	1.11
5886007--5886068	29	2.1	30	93	3	108	24	3	14	58	1.51
5886190--5886219	11	2.7	11	89	0	51	63	3	0	33	1.11
5889658--5889773	61	2.0	60	85	11	159	52	4	2	40	1.35
5889658--5889858	61	3.2	58	70	23	158	51	4	3	40	1.39
5892127--5892248	54	2.3	54	83	0	154	23	27	25	22	2.00
5894250--5894295	23	2.0	23	82	0	56	23	15	0	60	1.34
5898918--5898956	19	2.0	20	90	9	64	38	5	0	56	1.22
5902231--5902287	26	2.2	26	82	14	73	73	1	1	22	1.02
5903436--5903468	11	3.0	11	91	8	50	63	3	0	33	1.10
5904225--5904265	3	13.7	3	100	0	82	0	31	0	68	0.90
5904725--5904755	1	31.0	1	100	0	62	0	0	0	100	0.00
5910841--5910879	15	2.5	17	76	23	50	56	5	0	38	1.22
5914982--5915027	23	2.0	23	100	0	92	39	13	13	34	1.83
5916421--5916460	14	2.9	14	84	0	53	32	7	17	42	1.77
5916443--5916482	20	2.0	20	85	0	53	32	12	12	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5916430--5916495	35	1.9	34	87	3	96	33	10	13	42	1.79
5918868--5918899	15	2.1	15	100	0	64	37	12	50	0	1.41
5920448--5920504	29	1.9	30	89	3	89	36	1	43	17	1.60
5922416--5922455	21	1.9	21	85	10	55	17	2	17	62	1.44
5926436--5926499	10	6.3	10	75	15	51	35	0	6	57	1.24
5927817--5927883	25	2.7	25	86	4	82	20	25	25	28	1.99
5930488--5930525	2	19.0	2	100	0	76	50	0	0	50	1.00
5936187--5936241	23	2.4	23	84	0	65	23	18	20	38	1.93
5940293--5940353	26	2.3	27	97	2	115	40	9	0	49	1.36
5940412--5940463	27	1.9	27	96	0	95	30	23	30	15	1.95
5940617--5940686	19	3.7	19	82	3	97	37	10	0	52	1.35
5940613--5940692	19	4.4	19	79	6	94	36	12	0	51	1.40
5940622--5940697	37	2.1	37	100	0	152	38	13	0	48	1.42
5941521--5941585	29	2.4	28	92	7	107	49	0	10	40	1.38
5950069--5950190	27	4.5	27	84	0	118	27	20	15	36	1.93
5950069--5950185	54	2.2	54	82	0	135	28	20	16	35	1.94
5962272--5962340	26	2.8	26	72	22	67	43	21	18	15	1.88
5962377--5962454	26	3.0	26	84	0	84	38	17	20	23	1.93
5962401--5962463	26	2.4	26	89	5	92	34	19	25	20	1.96
5965272--5965520	50	4.8	50	81	3	264	26	22	29	22	1.99
5967048--5967160	42	2.7	42	92	0	181	36	21	19	23	1.95
5967134--5967255	42	2.9	42	78	4	122	27	21	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5967570--5967661	21	4.4	21	84	5	123	3	42	20	33	1.68
5972556--5972632	16	4.9	16	69	20	63	36	18	12	32	1.89
5973096--5973399	148	2.1	148	83	3	380	34	20	18	25	1.96
5973843--5973918	7	10.3	7	74	16	64	43	30	1	25	1.63
5973845--5973911	8	8.9	8	73	15	54	41	32	1	23	1.64
5973843--5973921	15	5.3	15	73	11	72	43	31	1	24	1.62
5974317--5974384	21	3.2	20	74	13	57	44	44	0	11	1.40
5974742--5975382	115	5.6	113	77	5	569	27	23	18	30	1.98
5974768--5975380	229	2.7	226	81	5	637	27	23	18	29	1.98
5977225--5978203	50	19.6	50	98	0	1859	20	31	22	26	1.98
5979305--5979372	21	3.2	21	71	8	66	42	19	25	13	1.87
5979470--5979581	24	4.7	24	93	0	188	23	26	7	42	1.79
5983963--5984023	26	2.3	26	82	0	77	32	26	14	26	1.95
5990972--5991000	4	7.5	4	92	7	51	79	0	0	20	0.74
5991448--5991483	18	2.1	18	89	5	56	61	0	2	36	1.11
5993757--5993811	21	2.6	21	85	0	74	60	5	1	32	1.30
5997901--5997937	17	2.2	16	90	4	56	0	16	5	78	0.93
5997925--5998024	33	3.0	33	84	11	116	11	9	4	76	1.15
5997983--5998008	12	2.2	12	100	0	52	15	7	0	76	0.99
5998022--5998098	23	3.4	22	82	12	77	38	0	2	58	1.12
5998019--5998115	22	4.8	20	73	18	76	38	0	2	59	1.09
5998083--5998118	16	2.2	16	95	0	63	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5998177--5998222	11	4.2	10	84	15	56	13	2	8	76	1.11
5998173--5998221	22	2.1	23	88	7	73	14	2	8	75	1.12
6005925--6005971	10	4.7	10	78	7	51	63	4	0	31	1.13
6005995--6006019	10	2.5	10	100	0	50	52	12	0	36	1.39
6006332--6006387	20	2.8	19	76	10	67	26	1	1	69	1.08
6006333--6006427	48	2.0	49	85	6	131	27	2	2	68	1.12
6006390--6006439	23	2.2	23	82	3	57	30	2	8	60	1.37
6008322--6008402	5	15.8	5	73	10	65	40	20	3	34	1.71
6009031--6009122	48	1.9	48	84	0	121	20	38	20	20	1.94
6009272--6009298	5	5.4	5	100	0	54	40	18	18	22	1.91
6010037--6010096	30	2.0	31	86	3	86	40	0	40	20	1.52
6010297--6010333	18	2.1	18	94	0	65	27	8	16	48	1.74
6014620--6014991	51	7.3	51	93	0	593	32	16	23	27	1.96
6016959--6017028	31	2.3	31	92	0	113	44	12	11	31	1.78
6018365--6018426	31	2.1	29	84	6	79	43	11	9	35	1.73
6018363--6018429	29	2.3	27	78	14	71	41	10	10	37	1.74
6020073--6020117	21	2.2	20	92	4	72	28	0	0	71	0.87
6020073--6020130	20	2.8	21	84	7	66	31	0	3	65	1.09
6021292--6021348	28	2.1	27	90	3	87	61	15	3	19	1.48
6026053--6026109	17	3.6	15	77	11	60	73	7	0	19	1.05
6026160--6026233	19	3.9	18	76	16	62	63	1	2	32	1.17
6026183--6026252	18	3.7	19	75	16	56	68	1	2	27	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6026171--6026253	29	2.9	28	78	16	82	65	2	2	30	1.18
6026398--6026438	16	2.5	17	88	7	59	78	2	0	19	0.87
6026087--6026709	311	2.0	312	99	0	1239	49	11	5	32	1.62
6026471--6026544	19	3.9	18	76	16	62	63	1	2	32	1.17
6026494--6026563	18	3.7	19	75	16	56	68	1	2	27	1.12
6026482--6026564	29	2.9	28	78	16	82	65	2	2	30	1.18
6031873--6031954	35	2.3	35	93	0	137	25	7	3	63	1.37
6031893--6031950	18	3.3	18	67	13	57	29	5	5	60	1.40
6031892--6031953	19	3.4	19	73	13	76	30	4	4	59	1.39
6031886--6031957	35	2.1	35	100	0	144	27	5	5	61	1.41

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