genome.fa.s17.2.7.7.80.10.50.1000.111.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  111  of  185  ( 22116 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)
34768870--34768915	20	2.3	20	88	0	65	28	4	17	50	1.65
34773440--34773485	20	2.3	21	85	11	69	26	4	15	54	1.59
34773845--34773987	27	5.3	27	88	0	187	45	18	14	21	1.85
34774884--34774926	20	2.2	20	100	0	86	46	13	16	23	1.83
34776157--34776211	24	2.3	24	83	0	74	25	14	9	50	1.72
34780538--34780582	21	2.2	21	84	4	56	28	4	0	66	1.11
34782076--34782114	16	2.4	16	86	4	51	43	15	10	30	1.80
34784936--34784972	16	2.4	17	82	17	53	32	5	24	37	1.78
34789598--34789718	23	5.3	23	92	2	199	32	26	21	19	1.97
34789598--34789718	45	2.7	46	89	2	199	32	26	21	19	1.97
34798345--34798401	20	2.9	20	78	2	71	38	7	15	38	1.75
34798916--34798981	9	7.4	9	73	21	59	68	0	1	30	0.99
34798926--34798960	11	3.3	11	92	4	54	74	0	2	22	0.95
34798987--34799057	18	3.9	17	80	14	72	61	2	0	35	1.10
34798962--34799051	37	2.6	34	80	18	96	58	2	1	37	1.17
34799122--34799174	19	2.8	20	77	11	58	66	0	1	32	1.03
34799112--34799189	29	2.7	29	78	9	95	62	2	2	32	1.22
34799774--34799832	29	2.1	29	81	12	70	38	0	3	57	1.15
34799762--34800139	10	39.6	9	67	18	103	34	1	4	59	1.27
34799838--34799890	28	2.0	25	82	17	63	41	1	0	56	1.10
34799838--34799890	27	2.0	28	85	10	76	41	1	0	56	1.10
34799837--34799966	29	4.6	27	67	22	72	37	2	2	57	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34799872--34799937	29	2.3	29	82	10	73	33	3	4	59	1.33
34803948--34803999	25	2.1	25	100	0	104	23	3	26	46	1.69
34806302--34806355	29	1.9	27	92	7	90	25	14	18	40	1.89
34806568--34806634	22	3.0	22	84	0	89	34	23	1	40	1.64
34806643--34806693	22	2.3	22	83	9	68	33	31	0	35	1.58
34806592--34806690	52	1.9	52	87	8	148	31	29	1	38	1.64
34806729--34806784	28	2.0	28	86	6	78	41	0	3	55	1.17
34806731--34806791	28	2.1	28	82	8	70	40	0	3	55	1.16
34806882--34806915	15	2.3	15	90	5	52	26	0	5	67	1.13
34809060--34809177	23	4.8	23	83	13	155	47	19	0	32	1.55
34809093--34809450	30	12.1	30	82	11	404	47	22	0	29	1.54
34809070--34809458	53	6.8	53	77	17	293	46	22	0	30	1.56
34809150--34809450	29	9.9	30	85	8	357	46	23	0	29	1.55
34809081--34809456	58	6.5	58	80	15	320	47	22	0	30	1.54
34809228--34809414	35	5.7	36	80	15	133	47	22	0	28	1.56
34809074--34809458	92	4.4	86	82	12	423	46	22	0	30	1.56
34809299--34809458	28	5.6	28	86	4	230	47	21	0	30	1.51
34812656--34812937	126	2.2	125	87	4	399	31	21	15	30	1.95
34815077--34815120	20	2.1	21	87	4	63	79	4	2	13	0.98
34815163--34815197	10	3.2	11	88	12	54	57	0	0	42	0.99
34815426--34815467	20	2.1	20	86	0	57	64	7	4	23	1.38
34817211--34817440	44	5.3	44	70	6	189	26	24	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34817264--34817483	43	5.1	43	67	5	165	24	24	24	26	2.00
34817216--34817483	87	3.1	87	92	1	448	24	24	22	28	1.99
34817446--34818123	88	7.7	88	85	0	881	21	22	27	28	1.99
34817523--34817660	44	3.2	42	72	8	132	17	24	29	28	1.97
34817490--34818123	263	2.4	265	88	1	932	21	22	27	29	1.99
34817490--34818123	177	3.6	176	85	2	871	21	22	27	29	1.99
34824204--34824254	19	2.7	19	84	0	57	80	3	1	13	0.94
34824297--34824330	10	3.1	11	87	12	52	55	0	0	44	0.99
34824357--34824395	18	2.2	18	90	9	62	69	0	5	25	1.09
34824594--34824640	17	2.9	17	78	9	55	63	6	2	27	1.30
34835380--34835445	27	2.5	26	82	7	87	42	19	16	21	1.89
34841862--34841986	67	1.9	66	90	5	198	40	11	22	25	1.87
34850282--34850363	15	5.9	14	85	12	75	65	1	1	31	1.08
34850282--34850346	3	21.7	3	96	0	121	66	0	1	32	1.01
34851804--34852578	99	7.9	97	86	4	888	22	20	24	32	1.98
34851804--34852569	49	15.7	49	67	7	322	21	20	24	32	1.98
34865157--34865200	3	14.7	3	95	0	79	65	0	2	31	1.05
34866422--34866480	30	2.0	30	93	0	100	28	15	8	47	1.74
34878642--34878681	20	2.0	20	90	0	62	30	15	15	40	1.87
34883708--34883770	22	2.7	23	80	12	74	39	4	0	55	1.21
34883719--34883790	22	3.2	22	81	13	83	41	4	0	54	1.20
34883758--34883794	11	3.4	11	88	0	56	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34883700--34883789	24	3.9	23	73	13	76	41	3	0	55	1.16
34891878--34891910	17	1.9	17	93	0	57	63	0	3	33	1.10
34902629--34902945	131	2.4	131	91	0	517	29	22	23	23	1.99
34902924--34903351	216	2.0	217	91	0	687	29	19	25	25	1.98
34903273--34903423	44	3.4	42	75	8	115	29	23	23	23	1.99
34903497--34903600	40	2.6	40	78	4	111	29	19	20	30	1.97
34903980--34904021	16	2.5	16	88	7	57	73	2	0	23	0.94
34925582--34925964	195	2.0	197	83	3	495	31	10	17	41	1.83
34929735--34929767	17	1.9	17	100	0	66	48	3	0	48	1.17
34929856--34930081	110	2.0	110	95	0	407	42	8	16	32	1.79
34930888--34933380	820	3.0	820	97	1	4644	31	9	18	39	1.84
34935949--34935979	16	2.0	16	93	6	55	45	0	9	45	1.36
34942424--34942484	21	2.9	20	74	13	52	68	3	0	27	1.05
34942436--34942481	17	2.6	17	82	6	56	71	4	0	23	1.03
34942737--34942781	13	3.6	13	80	16	51	35	2	0	62	1.08
34944498--34944530	6	5.5	6	92	0	57	15	18	12	54	1.71
34949429--34949466	19	2.1	18	85	14	51	36	2	5	55	1.37
34957510--34957542	18	1.9	17	88	11	50	30	0	12	57	1.35
34963732--34963785	5	10.4	5	80	13	56	20	3	0	75	0.95
34963732--34963792	17	3.8	16	79	14	72	21	3	0	75	0.94
34963739--34963789	9	5.8	9	80	17	54	21	3	0	74	0.98
34963749--34963792	12	3.5	13	87	12	65	22	4	0	72	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34963947--34964006	22	2.8	21	79	5	57	25	46	10	18	1.79
34964915--34965103	101	1.8	100	81	7	227	28	15	24	31	1.96
34965091--34965164	20	3.8	19	77	13	62	79	1	5	13	0.96
34965094--34965144	23	2.2	23	83	13	61	78	1	1	17	0.94
34965109--34965157	16	3.2	16	85	5	57	81	2	6	10	0.94
34965142--34965173	6	5.3	6	100	0	64	84	0	15	0	0.63
34965727--34965761	15	2.4	15	90	4	54	48	0	8	42	1.33
34968974--34969122	79	1.9	79	88	2	228	40	12	17	30	1.86
34969655--34969713	24	2.4	24	86	8	75	37	18	22	22	1.94
34971840--34971943	52	2.0	52	94	1	183	32	13	7	46	1.72
34971840--34971964	52	2.4	52	86	6	148	30	12	9	48	1.72
34982044--34982094	24	2.2	24	77	22	56	33	0	5	60	1.21
34982252--34982318	34	1.9	35	84	3	91	46	11	10	31	1.75
34984655--34984711	26	2.2	26	93	0	96	45	14	31	8	1.75
34991439--34991474	18	2.1	18	89	5	56	16	33	25	25	1.96
34994723--34994783	19	3.3	19	72	21	65	62	4	3	29	1.32
34994728--34994789	17	3.5	17	72	20	63	62	4	4	27	1.36
34994721--34994795	37	2.0	37	97	0	141	62	5	4	28	1.35
34995582--34995775	28	7.0	28	82	4	196	26	18	8	46	1.77
34995589--34995803	83	2.6	83	80	8	240	26	16	8	48	1.75
34995599--34995795	55	3.6	55	78	8	222	26	17	8	48	1.75
34996187--34996252	21	3.1	21	66	12	53	24	22	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35008462--35008490	12	2.3	13	94	5	51	20	6	6	65	1.40
35015042--35015100	31	1.9	30	83	10	75	40	6	15	37	1.74
35019806--35019872	3	22.3	3	77	17	59	29	1	2	65	1.16
35019985--35020028	17	2.6	17	85	3	63	40	11	0	47	1.39
35025202--35025234	14	2.3	15	89	5	50	27	12	33	27	1.92
35026575--35027310	88	8.4	88	81	2	791	26	25	24	23	2.00
35026703--35026861	44	3.6	44	69	18	116	27	23	25	23	2.00
35026576--35027340	176	4.4	175	84	2	890	27	24	24	23	2.00
35026577--35027148	263	2.2	264	89	2	846	27	25	25	22	2.00
35026624--35027310	351	2.0	352	84	2	923	26	25	25	23	2.00

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