genome.fa.s16.2.7.7.80.10.50.1000.161.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   

This is table  161  of  175  ( 20966 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)
48409735--48409847	59	1.9	58	82	5	138	38	5	10	45	1.62
48413995--48414026	4	8.0	4	100	0	64	50	25	0	25	1.50
48422452--48422504	25	2.1	25	82	0	61	16	32	16	33	1.92
48422471--48422609	75	1.9	75	84	6	192	20	25	18	35	1.96
48427641--48427688	21	2.3	22	89	7	73	12	12	2	72	1.20
48432404--48432461	31	2.0	28	80	12	64	44	3	5	46	1.42
48435586--48435912	46	7.6	46	82	13	428	28	21	14	34	1.93
48435722--48435876	36	4.0	36	78	15	184	27	20	14	36	1.92
48435676--48435912	82	2.9	82	94	0	420	28	21	13	35	1.92
48435585--48435912	128	2.6	133	80	15	420	28	21	14	35	1.93
48440096--48440139	23	1.9	23	95	0	79	25	6	27	40	1.80
48447055--48447088	6	5.5	6	86	6	50	64	0	0	35	0.94
48452417--48452481	29	2.2	31	86	5	89	46	3	3	47	1.33
48455152--48455286	66	2.0	66	95	0	243	34	14	22	29	1.93
48465254--48465368	10	11.4	10	70	24	64	68	0	30	0	0.95
48465265--48465369	14	7.2	14	67	25	58	70	0	28	0	0.94
48465265--48465375	5	22.8	5	70	11	52	70	0	27	1	0.98
48465253--48465364	38	3.0	37	81	11	138	67	0	31	0	0.96
48465262--48465383	41	3.0	41	80	8	124	69	0	28	1	0.98
48465269--48465364	10	9.1	10	75	15	77	69	0	29	1	0.95
48465944--48466316	154	2.4	155	92	4	614	49	5	12	33	1.62
48465743--48466342	154	4.0	153	76	12	560	50	6	11	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48468000--48468025	12	2.2	12	100	0	52	26	46	26	0	1.53
48472634--48472663	7	4.3	7	91	0	51	43	3	0	53	1.17
48473130--48473169	8	4.9	8	90	3	53	42	0	0	57	0.98
48473124--48473169	8	5.9	8	85	12	51	39	0	0	60	0.97
48473123--48473168	17	2.8	17	87	6	60	36	0	0	63	0.95
48476379--48476403	3	8.3	3	100	0	50	64	0	0	36	0.94
48478161--48478200	7	5.6	7	82	5	53	15	0	5	80	0.88
48478153--48478200	14	3.2	15	79	8	53	14	2	4	79	0.98
48478384--48478430	24	1.9	25	82	4	60	46	0	2	51	1.13
48479140--48479233	48	2.0	48	87	8	138	17	12	27	42	1.85
48482010--48482047	20	1.9	20	88	0	58	31	0	0	68	0.90
48482138--48482249	27	4.1	27	87	0	152	16	21	38	24	1.93
48485267--48485338	33	2.2	34	80	7	85	29	15	41	13	1.85
48487338--48487377	18	2.4	16	88	12	55	70	5	2	22	1.19
48487401--48487677	101	2.7	102	86	8	393	55	16	1	27	1.48
48487401--48487677	104	2.7	99	84	10	369	55	16	1	27	1.48
48487629--48487730	29	3.5	29	71	18	86	52	19	0	26	1.52
48487862--48488040	60	3.0	60	96	0	331	53	12	0	34	1.39
48489543--48489602	30	2.0	30	83	6	77	36	1	3	58	1.25
48489655--48489682	5	5.6	5	100	0	56	17	0	0	82	0.68
48496411--48496452	22	1.9	22	90	0	66	66	2	2	28	1.16
48496411--48496459	22	2.2	21	86	13	64	61	4	2	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48499313--48499342	15	2.1	15	93	6	53	43	0	0	56	0.99
48502785--48502916	64	2.1	64	95	0	237	36	16	21	25	1.94
48524047--48524080	15	2.3	15	94	0	59	52	2	5	38	1.41
48526076--48526115	12	3.2	12	80	19	55	65	0	0	35	0.93
48529781--48529827	21	2.4	18	86	10	58	25	4	23	46	1.70
48531500--48531566	35	2.0	34	91	5	109	46	10	7	35	1.66
48532658--48532703	20	2.2	21	88	3	67	52	13	26	8	1.69
48532705--48532897	99	1.9	100	94	1	343	20	22	26	30	1.98
48533171--48533366	99	2.0	100	92	1	331	18	21	28	31	1.97
48532437--48533365	466	2.0	467	97	0	1761	29	16	18	34	1.93
48537786--48537820	18	1.9	18	88	11	54	60	0	2	37	1.12
48539191--48539216	9	2.9	9	100	0	52	57	7	0	34	1.27
48540939--48540980	21	2.0	21	85	0	57	40	0	19	40	1.51
48541347--48541393	25	1.9	25	86	4	69	19	23	17	40	1.91
48541468--48541535	26	2.7	25	84	4	84	16	27	22	33	1.95
48544398--48544436	20	2.0	20	85	10	53	28	10	15	46	1.78
48545730--48545756	5	5.4	5	100	0	54	18	0	22	59	1.38
48546735--48546773	18	2.2	18	86	9	53	28	0	2	69	1.02
48546626--48546917	19	15.1	18	67	21	105	32	3	4	59	1.35
48546626--48546917	10	30.1	9	66	22	105	32	3	4	59	1.35
48551174--48551206	2	16.5	2	100	0	66	51	0	48	0	1.00
48554048--48554073	11	2.4	11	100	0	52	38	7	0	53	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48554032--48554182	41	3.7	40	89	6	205	33	2	0	63	1.08
48554077--48554145	17	3.6	17	69	23	57	33	1	0	65	1.02
48554088--48554164	11	7.2	11	72	21	65	33	2	0	63	1.08
48554032--48554164	40	3.3	40	92	3	214	32	3	0	64	1.09
48560881--48560910	11	2.7	11	100	0	60	33	20	20	26	1.97
48561166--48561204	11	3.5	11	92	3	51	48	5	2	43	1.38
48565462--48565533	16	4.5	16	79	6	83	41	6	22	29	1.79
48565462--48565533	32	2.2	32	87	4	101	41	6	22	29	1.79
48565778--48565810	17	1.9	17	100	0	66	63	0	0	36	0.95
48566588--48566631	17	2.5	18	88	3	63	34	13	0	52	1.41
48571038--48571131	45	2.1	45	84	4	118	43	7	18	30	1.77
48573575--48573661	43	2.0	43	97	0	165	52	8	13	25	1.67
48583746--48583810	31	2.0	33	85	5	89	43	4	6	46	1.49
48592425--48592450	11	2.4	11	100	0	52	53	0	7	38	1.30
48599288--48599321	17	2.0	17	94	0	59	29	17	14	38	1.90
48599792--48600064	99	2.8	98	76	6	266	27	10	35	25	1.89
48604389--48604430	15	2.7	16	82	14	52	45	0	2	52	1.13
48604380--48604421	15	2.9	15	82	10	52	47	0	0	52	1.00
48604645--48604691	16	2.9	16	96	0	85	23	36	2	38	1.67
48604760--48604827	9	7.6	9	86	0	82	23	8	25	42	1.82
48604752--48604827	18	4.2	18	86	0	98	23	7	25	43	1.80
48604760--48604827	27	2.5	27	90	0	100	23	8	25	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48605496--48605523	3	9.3	3	100	0	56	32	0	0	67	0.91
48612462--48612505	23	2.0	21	86	8	61	54	2	6	36	1.40
48613014--48613695	45	15.3	45	86	2	842	31	15	22	31	1.95
48620814--48620877	31	2.1	31	100	0	128	32	6	34	26	1.82
48622974--48623024	26	2.0	26	84	0	66	50	0	1	47	1.12
48624185--48624228	23	2.0	21	86	8	61	54	2	6	36	1.40
48624736--48625274	45	12.2	45	86	3	682	30	16	23	30	1.96
48624736--48625274	135	4.1	135	89	4	781	30	16	23	30	1.96
48627557--48627761	86	2.4	87	81	2	236	26	30	17	25	1.97
48627532--48627781	43	5.8	42	77	3	207	27	29	17	25	1.97
48628090--48628160	21	3.4	21	90	0	97	4	46	16	32	1.67
48628131--48628277	66	2.2	66	87	4	208	12	29	18	39	1.88
48628131--48628301	66	2.6	65	85	4	200	12	28	19	39	1.88
48630597--48630963	9	38.8	9	65	23	66	40	1	11	46	1.48
48630595--48630974	31	12.9	32	68	22	230	40	1	11	46	1.48
48630599--48630954	56	6.3	55	79	10	362	40	1	12	46	1.48
48630687--48630719	16	2.1	16	100	0	66	30	0	24	45	1.53
48630653--48630750	50	2.0	50	88	8	146	41	0	15	42	1.46
48630807--48630857	22	2.4	22	86	3	77	41	1	9	47	1.48
48631775--48631825	16	3.2	16	82	0	57	27	15	43	13	1.85
48632072--48632231	84	1.9	83	86	6	225	31	24	18	26	1.97
48632637--48632689	20	2.6	20	79	8	54	24	1	7	66	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48633136--48633166	14	2.1	15	94	5	55	38	32	0	29	1.57
48633910--48634611	114	6.2	114	90	1	1086	27	23	19	29	1.98
48633910--48634611	229	3.1	228	90	1	1086	27	23	19	29	1.98
48635791--48635835	17	2.4	20	76	23	53	48	0	4	46	1.22
48646147--48646207	31	1.9	33	83	6	81	39	3	4	52	1.39
48649167--48649191	13	1.9	13	100	0	50	56	0	32	12	1.36
48655651--48655744	46	2.0	46	100	0	188	26	8	28	36	1.86
48656213--48656249	9	4.1	9	89	0	56	45	10	13	29	1.77
48657280--48657305	5	5.2	5	100	0	52	19	19	19	42	1.90
48659995--48660045	21	2.4	21	87	6	77	56	7	23	11	1.61

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   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175