genome.fa.s20.2.7.7.80.10.50.1000.189.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  189  of  199  ( 23844 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)
54856562--54856674	56	2.0	56	87	3	165	28	17	25	28	1.98
54856618--54857313	74	9.4	72	84	6	808	29	17	21	32	1.96
54856618--54857313	75	9.4	79	79	11	587	29	17	21	32	1.96
54856976--54857269	159	1.9	159	89	2	466	29	17	21	31	1.96
54858523--54858568	18	2.8	17	78	15	53	76	4	2	17	1.06
54858524--54858568	17	2.9	14	79	20	54	77	4	2	15	1.02
54858664--54858696	11	2.9	12	91	8	52	0	48	0	51	1.00
54859161--54859226	3	21.3	3	75	6	60	30	1	6	62	1.29
54859168--54859229	23	2.8	22	87	4	81	32	1	8	58	1.37
54859168--54859237	23	3.0	23	79	10	63	31	2	10	55	1.47
54859324--54859359	3	12.0	3	87	0	54	33	5	0	61	1.19
54860923--54860964	22	2.0	20	86	13	59	52	9	0	38	1.34
54865990--54866017	14	2.0	14	100	0	56	50	0	14	35	1.43
54870324--54870372	10	5.0	10	78	16	50	44	0	4	51	1.20
54875789--54875848	29	2.0	30	87	9	88	38	1	0	60	1.07
54875816--54875850	18	1.9	18	100	0	70	34	0	0	65	0.93
54875805--54875848	11	4.4	11	75	21	51	36	2	0	61	1.09
54875817--54875857	18	2.2	18	91	4	64	34	0	2	63	1.08
54880345--54880378	12	2.8	12	95	0	59	26	26	44	2	1.69
54880148--54880364	66	3.3	67	80	5	221	23	27	25	23	2.00
54882174--54882200	14	1.9	14	100	0	54	37	7	3	51	1.48
54890733--54890875	33	4.3	33	71	7	99	32	16	22	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54890731--54890971	101	2.4	102	91	0	376	32	14	22	29	1.94
54895033--54895634	202	3.0	199	86	2	826	31	15	22	30	1.95
54908656--54908715	29	2.1	29	100	0	120	33	23	3	40	1.71
54915089--54915140	3	17.3	3	91	0	68	1	5	30	61	1.30
54916227--54916276	24	2.1	24	100	0	100	48	16	8	28	1.74
54928448--54928492	22	2.0	22	91	0	72	33	2	15	48	1.57
54933348--54933510	85	1.9	85	97	0	308	44	17	14	22	1.85
54942917--54942954	2	19.0	2	100	0	76	50	0	50	0	1.00
54943733--54943796	24	2.7	24	85	0	65	17	39	6	37	1.75
54947727--54947779	7	7.9	7	85	10	67	73	0	16	9	1.08
54947728--54947786	26	2.2	26	91	8	93	72	0	18	8	1.09
54949888--54949912	13	1.9	13	100	0	50	4	16	0	80	0.87
54966352--54966391	15	2.5	17	80	15	50	25	0	5	70	1.08
54969949--54970031	38	2.2	38	83	8	109	38	22	2	36	1.68
54972419--54972501	38	2.2	38	83	8	109	38	22	2	36	1.68
54974888--54974970	38	2.2	38	83	8	109	38	22	2	36	1.68
54977357--54977439	38	2.2	38	83	8	109	38	22	2	36	1.68
54985878--54985902	6	4.2	6	100	0	50	16	52	0	32	1.44
54986807--54986846	4	10.0	4	94	0	71	25	2	25	47	1.64
54988538--54988585	26	1.9	24	87	8	69	52	2	0	45	1.12
54991982--54992058	14	5.0	15	71	20	52	42	14	9	33	1.77
54991998--54992037	20	2.0	20	90	0	62	50	12	10	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54991986--54992052	34	1.9	35	90	3	109	46	13	8	31	1.74
54992766--54992804	18	2.2	17	86	13	53	33	0	20	46	1.51
54993030--54993127	23	4.3	23	90	2	162	20	21	26	31	1.98
54993032--54993120	45	2.0	45	95	0	160	19	22	26	31	1.97
54996526--54996620	40	2.4	39	75	12	93	41	14	11	32	1.82
55002040--55002065	4	6.5	4	100	0	52	26	23	23	26	2.00
55010442--55010471	16	1.9	16	93	6	53	36	0	0	63	0.95
55012477--55012760	96	2.9	97	86	2	385	42	6	23	27	1.78
55013093--55013125	5	6.6	5	100	0	66	81	0	0	18	0.68
55022748--55022781	6	5.5	6	93	6	59	85	0	14	0	0.60
55025008--55025048	20	2.1	19	86	4	55	46	9	4	39	1.58
55025495--55025525	4	8.0	4	92	7	55	51	0	0	48	1.00
55028584--55028623	21	1.9	21	85	10	55	72	5	5	17	1.21
55029328--55029358	16	1.9	16	93	0	53	35	6	0	58	1.24
55034976--55035077	50	2.0	50	100	0	204	27	24	15	32	1.96
55036704--55036849	72	2.0	71	88	3	213	26	23	11	37	1.89
55040853--55040912	30	2.1	28	93	6	102	45	13	28	13	1.81
55043459--55043514	26	2.2	26	90	6	87	28	25	17	28	1.98
55045776--55045847	29	2.4	29	77	11	76	44	0	2	52	1.15
55062038--55062183	73	2.0	73	100	0	292	39	6	6	46	1.57
55062046--55062166	37	3.3	37	65	23	101	37	7	6	48	1.57
55063658--55063771	25	4.5	25	70	10	72	64	3	2	28	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55063776--55063822	20	2.3	20	85	0	58	68	0	4	27	1.08
55064115--55064152	20	1.9	20	89	10	60	31	0	0	68	0.90
55064210--55064388	90	2.1	82	80	11	189	29	7	20	41	1.80
55064428--55064468	20	2.1	20	86	4	57	70	0	0	29	0.87
55065070--55065130	30	2.0	32	83	6	81	52	0	0	47	1.00
55067661--55067699	20	2.0	20	90	5	62	46	0	0	53	1.00
55067687--55067815	59	2.2	59	92	0	213	41	3	3	51	1.39
55067781--55067845	28	2.2	30	78	5	71	41	4	6	47	1.49
55068559--55068595	17	2.1	18	90	5	58	64	0	0	35	0.94
55098079--55098140	32	1.9	32	100	0	124	66	16	3	14	1.38
55105744--55105786	21	2.2	19	83	8	50	67	2	0	30	1.03
55106874--55106912	18	2.2	18	85	0	51	35	5	0	58	1.20
55116499--55116554	27	2.1	27	100	0	112	25	14	23	37	1.92
55118415--55118491	34	2.4	33	80	12	88	46	0	0	53	1.00
55118524--55118564	17	2.4	17	88	8	57	58	7	0	34	1.26
55123249--55123279	16	1.9	16	93	0	53	48	6	6	38	1.55
55130739--55131258	17	29.9	17	69	15	223	44	11	11	32	1.76
55130710--55130828	17	6.6	19	76	12	69	44	11	9	34	1.73
55130887--55131123	54	4.4	55	70	16	151	41	11	12	34	1.79
55130998--55131201	74	2.8	73	77	7	184	43	9	13	33	1.77
55131009--55131177	92	1.8	92	82	7	218	40	8	13	36	1.76
55131194--55131247	16	3.2	16	75	14	56	40	9	14	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55131411--55131461	17	3.0	16	77	11	57	72	1	0	25	0.95
55131587--55131645	14	4.5	14	81	10	63	0	16	0	83	0.66
55131596--55131647	14	3.6	14	82	12	70	0	15	0	84	0.62
55131764--55131818	24	2.3	24	93	0	101	0	25	9	65	1.22
55131765--55131829	11	5.6	11	77	12	60	0	23	7	69	1.14
55131940--55131981	7	6.0	7	81	8	50	0	21	0	78	0.75
55131936--55131991	21	2.6	22	86	8	71	0	25	0	75	0.81
55131942--55132008	24	2.8	24	84	10	77	0	29	0	70	0.88
55131936--55132004	17	4.1	16	75	15	52	0	27	0	72	0.85
55131977--55132005	10	2.9	10	100	0	58	0	37	0	62	0.96
55132068--55132108	19	2.3	19	84	12	52	0	31	0	68	0.90
55132063--55132110	17	2.8	16	78	12	51	0	31	0	68	0.90
55132339--55132455	30	3.9	30	80	3	130	44	3	22	29	1.69
55132339--55132455	60	2.0	59	83	5	146	44	3	22	29	1.69
55142707--55143445	54	14.0	54	90	6	1176	37	18	15	29	1.91
55142707--55143445	263	2.8	265	96	2	1355	37	18	15	29	1.91
55143398--55143943	72	7.5	73	94	1	895	33	18	16	31	1.93
55143398--55143956	217	2.6	217	93	1	942	34	18	16	30	1.93
55143940--55143973	17	2.0	17	88	0	50	64	5	11	17	1.45
55143993--55144262	117	2.3	120	92	7	464	34	21	14	29	1.93
55150850--55150959	37	3.0	37	94	1	195	24	21	16	37	1.93
55150923--55151237	52	6.2	52	85	7	393	29	21	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55150923--55151243	98	3.3	98	83	10	429	29	21	14	34	1.93
55155501--55156021	17	29.9	17	69	15	205	43	11	12	33	1.77
55155648--55155997	35	9.7	37	73	11	141	42	10	12	34	1.78
55155648--55155963	71	4.4	74	76	11	196	42	10	12	34	1.78
55155956--55156009	16	3.2	16	75	14	56	40	9	14	35	1.78
55155943--55156032	34	2.6	35	84	7	112	46	8	16	27	1.77
55156173--55156223	17	3.0	16	77	11	57	72	1	0	25	0.95
55156352--55156407	10	5.7	9	75	24	51	0	16	1	82	0.76
55156350--55156405	17	3.5	16	76	14	62	0	17	1	80	0.80
55156362--55156408	14	3.3	14	82	11	60	0	17	0	82	0.66

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   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199