genome.fa.s23.2.7.7.80.10.50.1000.12.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   

This is table  12  of  228  ( 27298 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)
4312925--4313039	29	3.9	28	76	15	108	61	3	4	30	1.32
4313028--4313079	19	2.7	20	78	6	70	67	0	5	26	1.13
4313311--4313377	30	2.3	29	82	12	75	32	7	0	59	1.25
4313369--4313402	17	2.1	17	88	5	52	20	0	2	76	0.92
4313508--4313769	91	2.9	91	77	5	242	37	9	15	38	1.79
4327434--4327584	75	2.0	75	100	0	302	32	15	14	37	1.88
4334279--4334320	16	2.6	16	85	11	50	30	2	2	64	1.19
4334403--4334478	32	2.4	32	97	2	145	53	7	10	27	1.62
4335907--4335961	27	2.0	28	86	10	78	61	3	0	34	1.13
4340820--4340849	14	2.1	14	93	0	51	53	16	0	30	1.44
4343247--4343520	138	2.0	138	89	0	422	33	18	18	28	1.95
4343277--4343550	138	2.0	137	80	4	304	36	18	20	24	1.95
4344805--4344852	18	2.7	18	90	9	73	45	4	6	43	1.48
4374526--4374557	16	2.0	16	93	0	55	12	34	6	46	1.67
4375495--4375552	21	2.5	23	78	16	66	18	5	18	56	1.59
4375509--4375552	21	2.1	21	95	0	79	20	4	15	59	1.54
4375569--4375611	21	2.0	21	82	8	52	37	0	6	55	1.27
4375604--4375709	55	1.9	54	81	7	124	43	1	5	49	1.37
4375908--4375946	16	2.5	16	95	4	71	28	30	7	33	1.85
4376085--4376152	23	2.9	23	80	2	82	27	8	17	45	1.78
4376089--4376168	23	3.4	23	81	5	81	31	7	17	43	1.77
4376322--4376353	15	2.1	15	100	0	64	43	12	0	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4383924--4383965	4	10.5	4	100	0	84	50	23	0	26	1.50
4395661--4395811	75	2.0	76	97	1	286	45	6	22	25	1.77
4403997--4404057	28	2.2	28	94	5	106	27	8	21	42	1.81
4414256--4414375	54	2.2	55	87	3	179	28	15	11	45	1.81
4417899--4417923	13	1.9	13	100	0	50	24	4	0	72	1.02
4430413--4430455	6	7.0	6	86	5	50	16	6	0	76	0.99
4430413--4430455	12	3.5	12	90	3	59	16	6	0	76	0.99
4430415--4430455	18	2.2	19	91	4	66	17	7	0	75	1.02
4431386--4431430	23	2.0	22	87	12	65	33	4	0	62	1.15
4432279--4432334	21	2.7	21	85	0	76	28	8	33	28	1.87
4432915--4433142	113	2.0	113	99	0	447	35	17	14	31	1.90
4437666--4437698	17	1.9	17	93	0	57	42	6	24	27	1.78
4441173--4441205	17	1.9	17	93	0	57	45	6	24	24	1.75
4442379--4442451	28	2.6	28	95	0	128	12	42	31	13	1.81
4442475--4442526	26	2.0	26	88	0	77	63	1	0	34	1.06
4442481--4442574	34	2.8	32	75	10	89	64	1	1	32	1.07
4443086--4443127	21	2.0	22	90	4	68	35	2	0	61	1.09
4443432--4443503	35	2.1	35	97	0	135	51	5	11	31	1.60
4447091--4447141	24	2.1	24	82	13	61	9	1	29	58	1.41
4448021--4448141	42	2.8	43	83	1	145	23	17	27	32	1.96
4448029--4448141	43	2.7	42	80	12	115	23	17	27	30	1.97
4455154--4455195	22	2.0	22	95	4	77	61	2	4	30	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4455203--4455253	22	2.5	19	73	20	50	37	7	1	52	1.42
4461143--4461250	54	2.0	54	90	3	173	16	12	52	18	1.74
4461978--4462064	43	2.0	43	100	0	174	27	25	9	37	1.86
4462774--4462803	7	4.4	7	95	4	53	76	0	0	23	0.78
4477867--4477916	17	2.7	20	78	18	70	10	0	44	46	1.37
4482506--4482555	17	2.7	20	78	18	70	10	0	44	46	1.37
4484919--4484970	23	2.3	23	90	6	79	42	9	13	34	1.77
4492990--4493017	8	3.5	8	100	0	56	64	0	0	35	0.94
4493396--4493443	17	2.8	17	87	6	62	47	2	2	47	1.25
4505998--4506073	29	2.7	27	77	16	73	64	1	3	30	1.20
4505908--4506073	9	17.4	9	70	17	88	60	1	3	34	1.20
4506505--4506578	27	2.7	28	82	10	82	29	1	2	66	1.14
4506571--4506632	26	2.5	25	80	12	65	33	1	0	64	1.03
4506561--4506649	36	2.6	33	80	8	90	31	3	1	64	1.17
4510004--4510028	11	2.3	11	100	0	50	76	0	0	24	0.80
4509853--4510027	9	18.1	9	68	18	77	62	2	2	32	1.22
4510357--4510527	28	6.4	26	70	20	90	33	1	2	61	1.21
4510376--4510527	27	5.8	25	74	18	96	33	1	2	62	1.17
4510377--4510535	19	8.9	17	71	15	76	33	1	2	62	1.16
4521390--4521475	10	8.9	9	72	20	59	32	4	2	60	1.30
4521537--4521578	20	2.1	20	100	0	84	19	9	16	54	1.69
4524528--4524577	12	4.4	12	70	14	52	66	0	0	34	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4524527--4524598	33	2.2	33	92	0	117	66	1	1	30	1.08
4527065--4527098	17	2.0	17	88	0	50	44	2	0	52	1.16
4527308--4527343	19	1.9	19	88	5	56	44	5	0	50	1.25
4528099--4528167	36	1.9	36	100	0	138	42	11	2	43	1.56
4528099--4528153	18	3.1	18	65	19	51	41	12	1	43	1.53
4535331--4535359	13	2.3	13	94	5	51	65	6	0	27	1.18
4538774--4538956	37	5.0	37	93	1	307	24	21	15	37	1.93
4538920--4539286	46	7.6	46	87	7	437	29	22	13	34	1.92
4538963--4539280	52	6.3	52	88	5	426	28	22	13	35	1.92
4538920--4539286	98	3.8	97	84	10	427	29	22	13	34	1.92
4545402--4545435	13	2.6	13	95	0	59	82	0	17	0	0.67
4545397--4545435	6	6.2	6	88	8	51	82	0	15	2	0.79
4545660--4545695	19	1.9	18	88	5	54	11	2	0	86	0.68
4551062--4551166	42	2.5	42	85	0	147	43	17	20	18	1.88
4551062--4551166	21	5.0	21	64	13	63	43	17	20	18	1.88
4551172--4551243	32	2.2	32	97	2	135	51	15	18	15	1.77
4554832--4554857	11	2.4	11	100	0	52	38	0	0	61	0.96
4557857--4557908	24	2.2	24	89	0	77	36	3	9	50	1.54
4557857--4557920	24	2.7	24	85	4	76	35	3	12	48	1.57
4559359--4559410	24	2.2	24	85	0	68	36	5	7	50	1.55
4560179--4560221	9	4.8	9	94	0	77	37	30	9	23	1.86
4561095--4561144	26	1.9	26	84	8	66	28	6	4	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4564629--4564659	16	1.9	16	93	0	53	54	3	6	35	1.42
4567776--4567827	24	2.2	24	89	0	77	55	9	1	32	1.43
4568023--4568085	30	2.1	30	81	0	72	60	12	1	25	1.42
4571468--4571557	36	2.9	30	73	20	85	51	1	0	47	1.08
4571520--4571630	55	2.0	55	98	0	213	51	0	3	44	1.25
4572081--4572114	18	1.9	17	88	5	50	41	2	14	41	1.61
4578978--4579040	27	2.3	27	80	17	69	33	12	3	50	1.56
4579152--4579217	29	2.3	29	81	0	78	25	16	15	42	1.87
4580839--4580917	24	3.1	24	74	15	77	35	2	1	60	1.18
4581140--4581212	34	2.1	34	92	0	119	39	9	9	41	1.71
4582992--4583029	19	1.9	20	89	10	60	28	13	7	50	1.69
4589293--4589366	19	3.3	21	73	21	62	44	1	1	52	1.17
4589471--4589528	25	2.3	26	96	3	109	43	18	6	31	1.77
4590265--4590294	14	2.1	15	93	6	53	36	6	3	53	1.44
4592808--4592841	17	2.0	17	94	0	59	44	50	0	5	1.26
4597448--4597481	17	2.0	17	94	0	59	44	50	0	5	1.26
4605743--4605769	6	4.5	6	100	0	54	33	0	0	66	0.92
4609724--4609759	18	2.0	18	94	0	63	22	36	27	13	1.92
4610970--4611019	22	2.4	21	81	12	59	54	2	2	42	1.23
4610981--4611024	22	2.0	22	86	4	63	52	4	0	43	1.22
4614549--4614590	22	1.9	22	95	0	75	14	0	30	54	1.40
4620161--4620185	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4620210--4620267	6	9.2	6	80	10	62	77	3	1	17	0.99
4621475--4621566	32	2.8	32	82	12	116	38	2	0	59	1.09
4621521--4621550	11	2.7	11	94	0	51	33	0	0	66	0.92
4624559--4624585	9	3.0	9	100	0	54	33	0	0	66	0.92
4624861--4624937	39	1.9	39	87	7	111	28	6	14	50	1.67
4624847--4624937	40	2.3	40	83	9	116	29	6	14	49	1.68
4626745--4626898	84	1.8	84	84	8	215	29	3	12	53	1.56
4631589--4631614	10	2.6	10	100	0	52	88	0	11	0	0.52
4638463--4638557	10	9.7	9	70	14	55	62	3	4	30	1.30
4644469--4644717	50	4.8	50	85	4	284	20	29	24	26	1.99

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228