genome.fa.s10.2.7.7.80.10.50.1000.20.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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   136   

This is table  20  of  136  ( 16211 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)
6354024--6354314	133	2.2	133	80	7	308	30	18	21	29	1.97
6354067--6354353	88	3.2	89	80	9	245	30	16	21	31	1.96
6355966--6356025	29	2.1	29	81	12	70	33	11	0	55	1.36
6356611--6356753	70	2.0	72	91	4	236	28	18	17	35	1.93
6358072--6358117	24	2.0	24	86	4	67	58	15	0	26	1.37
6358848--6358942	9	10.2	9	67	15	59	61	1	1	36	1.10
6358853--6358917	26	2.5	25	82	9	76	56	0	1	41	1.08
6358890--6358931	19	2.3	18	87	4	57	59	2	0	38	1.10
6359384--6359450	19	3.5	19	81	4	71	38	2	2	55	1.31
6359414--6359538	29	4.5	29	71	18	95	30	4	0	64	1.17
6359424--6359485	18	3.4	19	76	10	67	29	1	1	67	1.09
6360102--6360131	13	2.3	13	94	0	51	53	6	0	40	1.27
6369661--6369702	3	14.0	3	94	0	75	0	35	0	64	0.94
6376633--6376659	6	4.5	6	100	0	54	37	14	33	14	1.88
6383862--6383923	29	2.2	29	97	2	117	41	0	37	20	1.53
6384005--6384052	22	2.2	22	84	0	60	31	14	18	35	1.91
6399702--6399746	3	15.0	3	100	0	90	33	0	0	66	0.92
6400453--6400488	16	2.2	16	100	0	72	25	0	36	38	1.56
6400469--6400559	45	2.0	45	85	2	121	27	6	28	37	1.82
6400724--6400758	18	2.0	17	88	5	52	54	0	0	45	0.99
6409398--6409450	26	2.0	26	88	0	79	45	18	3	32	1.68
6413323--6413491	42	4.0	42	100	0	338	33	28	21	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6425220--6425331	25	4.5	25	71	14	81	19	25	19	34	1.96
6425204--6425299	50	1.9	50	85	4	131	21	27	17	33	1.96
6425334--6425422	25	3.5	25	76	13	76	23	24	17	33	1.96
6425761--6425813	25	2.1	25	100	0	106	35	22	13	28	1.92
6439284--6439323	20	2.0	20	90	0	62	27	10	12	50	1.72
6439270--6439335	35	1.9	34	87	6	98	30	7	13	48	1.70
6448337--6448585	50	4.8	50	86	5	320	21	30	22	25	1.98
6451048--6451091	24	1.9	23	90	9	72	29	11	18	40	1.85
6466232--6466262	9	3.4	9	90	0	53	25	12	22	38	1.90
6471867--6471908	13	2.9	14	80	13	50	52	0	0	47	1.00
6471871--6471907	15	2.3	17	86	13	60	56	0	0	43	0.99
6473688--6473908	114	1.9	114	90	0	352	29	16	21	32	1.96
6474390--6474463	29	2.5	29	82	4	85	25	14	13	45	1.82
6475016--6475084	29	2.3	29	85	5	84	47	15	14	21	1.81
6475101--6475187	38	2.3	38	75	15	90	41	3	4	50	1.40
6485256--6485290	16	2.2	16	90	10	54	25	11	11	51	1.71
6485258--6485302	12	3.4	12	78	21	54	26	8	13	51	1.70
6488367--6488672	2	153.0	2	100	0	612	50	0	0	50	1.00
6489753--6489846	41	2.3	40	80	12	102	30	15	21	31	1.95
6489960--6490022	22	2.8	22	69	19	58	26	0	3	69	1.03
6493465--6493688	57	4.0	57	84	2	292	30	9	16	42	1.81
6493465--6493718	57	4.5	57	81	6	277	31	9	15	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6496483--6496537	26	2.1	27	75	21	64	32	7	18	41	1.78
6496566--6496615	9	5.6	9	90	0	82	24	10	24	42	1.85
6496558--6496615	18	3.2	18	90	0	89	24	8	25	41	1.83
6497949--6498054	43	2.5	42	85	1	149	28	21	2	47	1.65
6504396--6504605	41	5.1	40	78	5	197	16	23	22	37	1.93
6504396--6504582	82	2.3	82	89	0	284	16	24	23	35	1.95
6504400--6504605	82	2.5	82	86	3	254	16	23	23	36	1.94
6505137--6505174	15	2.5	15	86	0	58	21	0	42	36	1.53
6505110--6505177	15	4.9	14	74	13	52	23	0	35	41	1.55
6507236--6507262	10	2.7	10	100	0	54	40	0	18	40	1.51
6513516--6513897	43	8.9	43	79	5	150	28	21	25	24	1.99
6513516--6513897	86	4.5	84	77	8	294	28	21	25	24	1.99
6513585--6513897	129	2.4	127	82	6	364	26	20	26	25	1.99
6515881--6515986	40	2.6	40	79	4	115	36	6	8	48	1.60
6521486--6522335	163	5.3	162	70	14	617	30	11	8	50	1.68
6521473--6522342	327	2.7	321	89	4	1333	30	11	8	50	1.67
6522629--6522756	40	3.2	40	82	3	116	32	22	24	20	1.98
6522646--6522779	40	3.4	39	82	4	164	35	21	21	20	1.96
6522815--6523055	41	5.9	41	89	2	360	21	24	26	27	1.99
6524207--6524273	33	2.1	32	91	2	107	19	4	40	35	1.72
6525465--6525734	43	6.3	43	87	0	344	21	18	31	28	1.97
6525851--6525976	27	4.8	25	70	17	76	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6525864--6525994	28	4.2	31	74	14	92	0	35	0	64	0.94
6525901--6525969	5	14.4	5	74	8	63	0	33	0	66	0.92
6525903--6525965	10	6.5	10	80	7	76	0	33	0	66	0.92
6525854--6525948	28	3.4	27	76	9	84	0	35	0	64	0.94
6525903--6525980	14	5.4	14	68	14	52	0	33	0	66	0.92
6525851--6525980	34	3.7	34	76	19	117	0	33	0	66	0.92
6525873--6525978	10	10.6	10	73	9	56	0	31	0	68	0.89
6526037--6526095	27	2.2	27	93	0	100	15	35	32	16	1.90
6534036--6534065	2	15.0	2	100	0	60	50	0	0	50	1.00
6535253--6535509	63	4.1	63	100	0	514	39	9	7	43	1.66
6536323--6536350	6	4.7	6	100	0	56	82	0	17	0	0.68
6541108--6541152	20	2.3	19	82	14	56	62	0	4	33	1.15
6542332--6542357	6	4.3	6	100	0	52	30	0	19	50	1.48
6543645--6543698	11	4.8	12	75	11	60	25	27	1	44	1.64
6543644--6543698	23	2.5	22	80	11	67	25	27	1	45	1.64
6543658--6543757	51	2.0	51	84	4	130	27	25	1	47	1.59
6544906--6544931	7	3.7	7	100	0	52	26	0	15	57	1.38
6545580--6545619	18	2.2	18	86	0	53	15	30	10	45	1.78
6546559--6546610	13	4.0	13	78	9	61	36	7	21	34	1.82
6560478--6560656	88	2.0	89	98	1	351	27	9	22	39	1.85
6562196--6562244	21	2.3	20	76	10	53	28	16	12	42	1.84
6563386--6563431	23	2.0	23	100	0	92	39	17	8	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6569928--6570233	145	2.1	146	97	1	580	38	5	5	50	1.49
6581489--6581524	15	2.5	14	91	8	63	50	0	5	44	1.25
6585770--6586016	43	5.7	43	84	1	271	27	28	21	22	1.99
6585777--6586016	129	1.9	129	82	1	302	27	28	21	22	1.99
6585759--6586037	129	2.2	127	76	7	292	29	27	20	23	1.99
6585782--6586142	43	8.4	43	78	7	229	27	28	19	24	1.99
6586476--6586643	66	2.5	66	83	5	207	13	27	18	40	1.88
6590646--6590706	23	2.8	22	83	9	81	34	8	0	57	1.29
6591000--6591042	23	1.9	23	85	4	61	46	4	0	48	1.22
6612337--6612411	20	3.8	20	81	0	96	36	22	32	9	1.86
6613766--6613799	11	3.1	11	86	0	50	50	11	2	35	1.54
6616947--6617172	105	2.2	105	80	6	244	20	28	24	26	1.99
6619556--6620016	90	5.2	88	83	4	536	52	12	7	27	1.66
6619556--6620016	175	2.6	175	82	6	534	52	12	7	27	1.66
6620429--6620553	58	2.2	58	80	7	139	27	19	20	33	1.96
6622825--6622850	2	13.0	2	100	0	52	50	0	0	50	1.00
6628192--6628248	27	2.2	26	83	3	69	24	15	28	31	1.96
6633965--6634009	17	2.5	18	85	7	56	71	2	2	24	1.09
6634036--6634060	12	2.1	12	100	0	50	68	0	16	16	1.22
6640693--6640752	31	1.9	31	83	6	77	43	13	10	33	1.77
6641976--6642253	132	2.1	132	99	0	547	25	23	20	30	1.99
6642219--6642564	43	8.1	42	85	4	377	26	26	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6642261--6642564	43	7.1	43	88	1	396	24	26	20	28	1.99
6643012--6643052	21	2.0	21	90	0	64	4	48	14	31	1.65
6646534--6646579	22	2.1	22	88	8	67	34	39	4	21	1.73
6646540--6646592	22	2.4	21	81	9	61	39	39	3	16	1.67
6646800--6646844	21	2.1	22	83	4	56	37	37	2	22	1.67
6646920--6646952	14	2.4	14	89	0	57	51	27	0	21	1.48
6646892--6646979	39	2.2	40	82	6	108	47	25	2	25	1.63
6647369--6648026	208	3.2	207	91	1	996	29	23	18	28	1.98
6650005--6650096	9	10.2	9	83	4	96	22	8	26	42	1.82
6652216--6652252	16	2.2	16	90	4	56	40	5	8	45	1.56

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   136