genome.fa.s12.2.7.7.80.10.50.1000.122.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  122  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)
40389038--40389095	9	6.4	9	85	0	80	37	24	12	25	1.90
40389038--40389095	18	3.2	18	90	0	89	37	24	12	25	1.90
40389197--40389240	18	2.4	18	88	0	61	13	2	43	40	1.57
40389433--40389662	118	1.9	118	95	0	415	30	15	11	42	1.83
40390364--40390429	32	2.2	31	80	17	77	48	3	0	48	1.17
40390362--40390403	15	3.0	14	86	10	59	52	0	0	47	1.00
40390546--40390605	25	2.4	24	80	5	66	41	1	5	51	1.33
40399330--40399387	29	2.0	28	84	15	75	53	8	13	24	1.68
40402367--40402432	21	2.9	23	70	21	57	30	18	12	39	1.87
40402543--40402575	11	3.2	11	83	16	52	63	18	0	18	1.31
40405167--40405229	33	1.9	33	93	0	108	30	17	12	39	1.87
40409883--40410305	211	2.0	211	96	0	774	19	30	7	42	1.80
40412927--40413080	21	7.3	21	78	0	146	44	16	22	15	1.86
40412940--40413080	42	3.4	42	84	0	174	45	17	22	14	1.85
40412927--40413075	63	2.4	63	80	2	165	44	17	22	16	1.87
40418113--40418164	26	2.0	26	96	3	97	34	5	7	51	1.54
40421347--40421373	14	1.9	14	100	0	54	22	18	7	51	1.70
40426135--40426170	18	2.0	18	94	0	63	33	8	11	47	1.69
40428815--40428882	33	2.1	33	100	0	136	42	14	17	25	1.87
40429392--40429437	16	2.8	17	77	6	51	34	4	4	56	1.39
40430315--40430350	18	1.9	19	94	5	65	25	0	8	66	1.19
40430458--40430493	18	1.9	19	94	5	65	25	0	8	66	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40430251--40430526	143	1.9	143	99	0	543	41	7	10	39	1.69
40440221--40440537	159	2.0	159	90	1	501	19	29	14	36	1.92
40443153--40443189	8	4.4	8	87	12	56	83	2	2	10	0.84
40443153--40443207	26	2.1	27	83	10	69	78	3	7	10	1.08
40450506--40450576	19	3.6	20	88	7	101	35	8	18	38	1.81
40450515--40450599	19	4.0	23	83	11	69	36	5	18	38	1.75
40450555--40450599	23	2.0	22	86	4	63	35	6	17	40	1.76
40450908--40450937	3	10.0	3	92	0	51	30	0	3	66	1.07
40464418--40464443	12	2.2	12	100	0	52	42	19	7	30	1.79
40465174--40465222	22	2.2	22	85	7	64	59	4	0	36	1.17
40467360--40467447	45	2.0	44	84	6	115	36	5	23	34	1.79
40467613--40467647	18	2.0	17	88	5	52	54	0	0	45	0.99
40470964--40471067	31	3.4	30	71	10	77	32	9	8	49	1.66
40470962--40471094	62	2.1	62	82	8	155	31	12	10	45	1.75
40488191--40488235	18	2.5	18	85	7	65	37	0	13	48	1.42
40488457--40488646	52	3.7	52	98	0	362	38	10	10	40	1.73
40498241--40498270	12	2.5	12	100	0	60	63	13	0	23	1.29
40498831--40499230	94	3.8	107	75	19	324	30	13	19	36	1.90
40499363--40499558	41	4.9	41	71	15	144	40	3	0	56	1.15
40499398--40499431	17	2.0	17	88	0	50	35	0	0	64	0.94
40499362--40499579	11	21.6	11	65	26	92	39	2	0	57	1.13
40499397--40499579	59	3.1	58	89	2	267	39	2	0	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40499540--40499588	21	2.3	21	86	10	64	28	2	4	65	1.22
40502748--40502791	23	1.9	23	85	0	61	45	0	6	47	1.29
40502899--40502952	22	2.3	23	87	6	74	55	5	5	33	1.46
40509779--40509864	42	2.0	42	95	0	154	29	27	20	22	1.99
40511957--40512125	85	2.0	85	94	2	295	37	20	11	30	1.87
40513327--40513357	14	2.1	15	94	5	55	25	0	0	74	0.82
40513329--40513383	21	2.6	21	75	11	58	30	1	0	67	1.01
40514228--40514300	27	2.7	27	84	0	101	31	24	27	16	1.96
40514305--40514369	19	3.3	19	85	8	94	30	1	13	53	1.49
40514631--40514666	14	2.6	14	95	0	63	36	5	2	55	1.38
40514700--40514777	27	2.9	27	94	0	129	24	32	24	19	1.98
40515723--40515779	29	2.0	29	85	0	78	29	17	12	40	1.86
40516584--40516704	29	4.1	29	75	11	104	36	17	1	44	1.59
40516583--40516704	30	4.2	30	77	9	110	36	17	1	45	1.58
40517057--40517104	25	1.9	25	87	8	71	72	0	25	2	0.95
40517057--40517113	18	3.2	18	72	5	53	70	0	28	1	0.98
40517197--40517244	13	3.8	13	83	5	55	70	0	29	0	0.87
40517203--40517293	11	8.3	11	69	10	53	73	1	24	1	0.96
40517553--40517627	14	5.4	13	72	17	53	78	0	20	1	0.82
40517577--40517630	7	7.9	7	85	10	76	85	0	14	0	0.61
40517578--40517621	13	3.4	13	93	6	72	86	0	13	0	0.57
40517575--40517633	10	5.9	10	82	7	75	84	0	15	0	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40517564--40517632	13	5.3	13	76	11	61	82	0	15	1	0.74
40517780--40517820	17	2.4	17	87	4	55	31	0	0	68	0.90
40518118--40518217	17	5.7	17	71	20	64	30	15	6	49	1.68
40518194--40518258	30	2.2	30	94	2	114	15	13	7	63	1.51
40518310--40518548	18	13.2	17	66	15	54	32	11	11	44	1.76
40518308--40518568	36	7.3	34	74	13	161	31	11	11	45	1.75
40518328--40518565	90	2.6	88	80	10	277	31	12	11	44	1.77
40518328--40518584	17	14.3	17	77	10	203	31	12	10	44	1.77
40519687--40519735	9	5.4	9	80	9	64	40	18	10	30	1.84
40519687--40519735	18	2.7	18	87	6	73	40	18	10	30	1.84
40522956--40522984	14	2.0	15	93	6	51	41	6	0	51	1.28
40527208--40527259	25	2.0	27	85	7	72	51	5	9	32	1.58
40532213--40532244	2	17.0	2	87	12	50	50	0	0	50	1.00
40536113--40536159	23	2.0	24	87	4	69	38	17	6	38	1.75
40536113--40536178	21	3.0	23	77	18	77	37	16	7	37	1.77
40536136--40536190	19	2.7	21	83	11	78	38	16	9	36	1.80
40540697--40540763	29	2.3	30	89	7	111	46	1	4	47	1.31
40543972--40544004	16	2.2	16	89	10	52	15	3	0	81	0.80
40545513--40545570	7	8.3	7	78	5	55	43	27	0	29	1.55
40545513--40545565	28	1.9	27	92	3	88	45	26	0	28	1.54
40545514--40545565	14	3.8	14	79	2	61	46	26	0	26	1.53
40547030--40547071	16	2.5	17	78	17	52	57	7	4	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40550936--40550990	14	4.2	13	73	17	51	18	7	1	72	1.16
40553460--40553490	14	2.2	14	94	0	53	38	0	12	48	1.42
40555577--40555635	27	2.1	28	87	3	84	62	1	0	35	1.05
40557010--40557052	3	14.3	3	90	0	68	4	0	27	67	1.10
40558464--40558529	31	2.1	31	88	0	96	34	18	10	36	1.85
40567566--40567698	62	2.2	59	84	6	162	51	4	3	40	1.40
40572611--40572654	19	2.2	21	84	11	58	59	0	2	38	1.10
40575090--40575121	16	2.0	16	100	0	64	18	25	18	37	1.94
40575131--40575312	51	3.6	52	85	5	230	32	28	15	24	1.95
40575226--40575308	26	3.2	26	68	27	77	33	27	13	25	1.93
40579075--40579118	19	2.4	18	88	3	61	31	15	0	52	1.44
40579811--40579936	46	2.8	46	89	3	186	29	21	15	33	1.95
40582383--40582419	14	2.7	13	88	12	56	0	21	0	78	0.75
40582385--40582418	11	3.2	11	87	8	52	0	20	0	79	0.73
40584129--40584183	19	2.9	19	86	7	69	54	7	0	38	1.28
40584147--40584214	18	3.7	18	67	13	50	58	5	0	35	1.22
40584129--40584215	19	4.7	18	76	2	66	57	5	0	36	1.23
40584190--40584234	21	2.1	21	84	8	56	71	4	0	24	1.05
40592378--40592425	23	2.0	24	88	4	71	70	18	4	6	1.25
40592565--40592601	18	2.0	20	89	10	60	27	8	0	64	1.21
40596991--40597037	22	2.0	24	84	15	64	23	10	10	55	1.65
40599452--40599494	17	2.4	18	88	3	61	58	0	4	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40600410--40600464	18	3.1	18	73	21	53	47	1	0	50	1.11
40602374--40602420	12	3.9	12	85	0	67	51	27	21	0	1.48
40602375--40602420	24	1.9	24	90	0	74	50	28	21	0	1.49
40604851--40604887	18	2.0	19	89	5	58	35	13	2	48	1.57
40622271--40622314	19	2.3	19	92	0	70	36	27	9	27	1.87
40629716--40629844	43	3.0	43	80	8	154	26	17	24	31	1.97
40633853--40633912	10	6.5	10	70	22	51	43	0	1	55	1.10
40633839--40633949	35	3.0	36	83	11	127	42	1	3	52	1.29
40636453--40636482	15	1.9	16	93	6	53	66	3	0	30	1.07
40636762--40636859	52	1.9	51	81	6	117	19	24	0	56	1.42

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