genome.fa.s14.2.7.7.80.10.50.1000.105.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   

This is table  105  of  213  ( 25468 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)
29757278--29757319	17	2.4	18	80	4	50	11	14	2	71	1.24
29757908--29757942	16	2.1	17	89	5	54	34	5	5	54	1.48
29773260--29773297	20	1.9	20	84	10	51	42	2	0	55	1.14
29774309--29774360	27	2.0	27	84	3	70	75	11	0	13	1.06
29784538--29784588	20	2.5	22	75	18	56	52	1	0	45	1.12
29786042--29786075	16	2.1	16	88	0	50	23	32	5	38	1.79
29790382--29790431	25	2.0	25	100	0	100	20	20	12	48	1.80
29790683--29790925	45	5.4	45	86	2	299	18	22	16	43	1.88
29796672--29796725	29	1.9	29	85	7	76	55	0	9	35	1.32
29798527--29799468	129	7.3	129	93	0	1566	23	21	23	31	1.98
29798748--29799381	89	7.3	86	68	14	331	22	21	23	32	1.98
29799502--29800323	50	16.5	49	67	8	397	25	22	21	30	1.99
29799552--29800329	199	3.9	199	86	2	1017	25	21	21	30	1.98
29799502--29800329	100	8.3	100	84	2	970	25	22	21	30	1.98
29810115--29810305	61	3.2	60	70	14	194	42	2	4	50	1.35
29810092--29810275	59	3.1	59	69	14	187	41	1	4	52	1.31
29810119--29810302	59	3.1	58	67	25	157	42	2	4	50	1.36
29810185--29810423	103	2.4	102	81	6	306	40	1	3	53	1.29
29810071--29810333	120	2.2	120	93	3	455	41	1	3	52	1.30
29810351--29810403	18	3.0	17	91	5	79	39	1	1	56	1.21
29810562--29810654	46	2.1	44	87	4	132	34	27	7	30	1.85
29820669--29820774	41	2.6	41	95	0	185	21	21	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29840171--29840223	23	2.4	22	76	20	56	69	1	18	9	1.25
29846273--29846356	42	2.0	42	95	0	150	45	9	15	29	1.78
29846898--29846931	15	2.3	15	100	0	68	55	0	5	38	1.24
29864736--29864769	16	2.2	15	89	5	50	44	0	0	55	0.99
29867192--29867230	19	2.1	19	100	0	78	41	5	5	48	1.47
29867492--29867619	42	3.0	43	84	6	172	14	21	16	47	1.82
29867516--29867616	21	4.8	21	68	4	78	14	20	15	48	1.81
29869058--29869106	25	2.1	22	81	11	53	55	6	12	26	1.60
29874548--29874673	43	2.9	43	80	12	141	31	29	18	20	1.96
29876836--29876880	21	2.1	21	95	0	81	33	15	6	44	1.73
29879791--29879820	15	2.0	15	100	0	60	26	13	20	40	1.89
29879938--29880153	90	2.4	90	80	4	233	33	16	21	28	1.95
29882402--29882455	21	2.6	21	90	0	81	25	37	22	14	1.93
29886773--29886814	20	2.1	19	83	16	50	26	9	16	47	1.77
29897161--29897193	17	1.9	17	93	0	57	45	0	0	54	0.99
29897232--29897268	16	2.3	16	86	13	58	40	0	0	59	0.97
29897254--29897289	18	1.9	19	88	5	56	55	0	2	41	1.14
29897253--29897329	31	2.5	30	76	19	86	49	0	2	48	1.15
29897399--29897432	17	1.9	18	88	5	52	50	0	2	47	1.16
29903320--29903360	21	2.0	21	90	0	64	29	21	29	19	1.98
29909407--29909456	23	2.2	23	82	7	57	22	2	10	66	1.32
29913613--29913752	40	3.5	40	78	6	151	27	15	25	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29924457--29924517	27	2.3	27	85	0	77	37	26	4	31	1.77
29924472--29924529	27	2.1	27	87	0	80	31	20	8	39	1.83
29939008--29939054	23	2.0	23	84	8	60	51	0	6	42	1.27
29958909--29958951	21	2.0	22	81	4	52	39	0	2	58	1.11
29962315--29962502	94	2.0	94	85	2	252	30	18	13	37	1.90
29962415--29962687	63	4.3	63	72	9	212	32	17	12	37	1.87
29962544--29962647	27	3.5	27	67	20	73	32	21	11	34	1.89
29962415--29962648	130	1.8	126	85	3	324	32	17	11	38	1.86
29970254--29970287	16	2.1	16	94	0	59	47	0	17	35	1.48
29974399--29974566	85	2.0	85	92	2	286	33	11	31	23	1.91
29985523--29985635	62	1.9	57	82	12	138	36	11	0	51	1.44
29985769--29985813	21	2.2	20	88	4	63	44	4	2	48	1.35
29990431--29990531	41	2.5	41	88	3	141	28	19	23	27	1.99
29996772--29996815	15	3.1	15	87	12	58	68	0	20	11	1.20
29998075--29998386	88	3.5	88	92	0	498	29	22	24	24	1.99
29998415--29998889	50	9.5	50	69	2	326	29	22	25	21	1.99
29998399--29998938	100	5.4	100	91	1	866	31	22	24	20	1.98
30000678--30000792	62	1.9	58	82	10	142	36	11	0	51	1.44
30000910--30000946	9	4.0	9	86	6	56	40	0	2	56	1.13
30000931--30000986	21	2.6	22	75	13	62	46	3	1	48	1.30
30003286--30003325	19	2.0	21	85	9	57	57	0	0	42	0.98
30005150--30005420	124	2.2	125	86	7	383	29	16	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30008549--30009247	28	23.9	28	82	11	805	30	0	22	45	1.56
30008546--30009252	62	12.1	57	82	10	820	31	0	22	45	1.57
30008967--30009018	23	2.3	21	100	0	68	28	0	25	46	1.53
30008549--30009245	57	11.8	60	77	18	684	30	0	22	45	1.56
30011392--30011425	15	2.3	15	90	5	52	67	5	0	26	1.13
30011523--30011579	28	2.0	28	86	6	80	57	1	1	38	1.19
30011522--30011561	19	2.0	21	85	9	57	57	0	0	42	0.98
30011613--30011661	22	2.2	21	80	16	55	30	0	32	36	1.58
30011668--30011714	22	2.1	22	88	0	67	40	0	27	31	1.57
30011616--30011714	52	1.9	52	82	0	126	36	0	29	34	1.58
30016457--30016524	25	2.7	25	88	0	100	27	23	23	25	2.00
30023052--30023172	58	2.1	58	98	0	233	42	11	12	33	1.78
30023729--30023781	16	3.5	16	73	16	51	64	0	1	33	1.05
30023758--30023792	14	2.4	15	90	4	54	68	5	0	25	1.11
30026300--30026372	29	2.6	29	84	6	87	47	0	2	49	1.15
30026924--30026957	12	2.8	12	81	0	50	67	11	0	20	1.21
30028291--30028413	56	2.2	54	81	5	131	46	8	0	45	1.33
30028322--30028413	28	3.4	27	94	5	159	40	9	0	50	1.36
30028731--30028797	19	3.6	19	77	4	82	35	11	1	50	1.48
30028881--30029045	82	2.0	82	98	0	321	44	9	6	38	1.64
30029114--30029172	19	3.2	19	80	4	75	50	0	13	35	1.42
30029114--30029164	18	2.8	18	81	3	57	52	0	13	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30029854--30029918	28	2.4	28	94	2	114	47	0	10	41	1.38
30031369--30031492	54	2.3	54	84	0	158	25	25	29	19	1.99
30035095--30035134	16	2.5	16	91	0	62	35	35	7	22	1.82
30036255--30036336	9	8.7	9	74	10	74	24	7	26	41	1.81
30036255--30036307	20	2.8	20	82	5	65	24	7	26	41	1.81
30036264--30036336	29	2.5	29	93	0	119	24	8	26	41	1.83
30036296--30036337	20	2.1	20	90	0	66	21	7	26	45	1.77
30040778--30040997	21	10.5	21	71	7	135	43	17	22	16	1.88
30040791--30041018	84	2.7	84	83	4	255	42	17	23	16	1.89
30040791--30041000	42	5.0	42	83	4	219	42	18	22	16	1.89
30043074--30043130	24	2.4	25	79	8	64	50	3	1	43	1.29
30043634--30043658	11	2.3	11	100	0	50	60	0	8	32	1.26
30047969--30047995	12	2.2	12	100	0	54	14	25	22	37	1.93
30048130--30048210	41	2.0	41	90	0	126	23	18	30	27	1.98
30048994--30049023	15	2.0	15	100	0	60	20	0	46	33	1.51
30048727--30049447	289	2.4	293	84	7	906	30	2	25	41	1.68
30049241--30049270	7	4.3	7	91	0	51	26	0	36	36	1.57
30053552--30053642	43	2.1	43	83	2	112	32	10	12	43	1.77
30053993--30054302	43	7.3	43	84	1	329	26	17	28	27	1.98
30062490--30062527	20	1.9	20	94	0	67	55	0	10	34	1.34
30063985--30064014	16	1.9	15	93	6	51	16	46	10	26	1.78
30068373--30068430	20	3.0	19	82	7	73	68	5	1	24	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30069142--30069195	19	2.8	19	83	8	56	59	0	5	35	1.21
30069025--30069184	10	16.5	10	67	21	76	58	1	3	36	1.22
30069025--30069202	9	18.7	9	71	18	112	60	1	3	35	1.21
30069149--30069195	19	2.4	20	82	3	60	59	0	6	34	1.23
30080099--30080321	40	5.6	40	86	3	236	24	21	27	26	1.99
30080174--30080356	79	2.3	80	82	1	226	25	20	27	25	1.99
30098890--30098923	10	3.3	10	84	8	50	55	2	2	38	1.30
30098910--30098949	20	2.0	21	85	5	55	65	2	5	27	1.27
30099072--30099130	29	2.0	30	87	9	86	32	10	11	45	1.74
30099083--30099139	30	1.9	29	82	10	71	35	12	8	43	1.73

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213