genome.fa.s23.2.7.7.80.10.50.1000.13.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  13  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)
4644468--4644717	100	2.4	104	88	6	357	20	29	24	26	1.99
4644812--4644843	13	2.5	13	94	0	55	56	12	0	31	1.37
4645055--4645112	30	1.9	30	85	0	80	31	22	5	41	1.76
4652250--4652301	9	5.8	9	95	0	86	38	28	9	23	1.86
4656366--4656391	3	8.7	3	100	0	52	34	0	34	30	1.58
4660447--4660659	109	1.9	108	89	5	329	30	14	19	35	1.92
4662372--4662504	61	2.2	61	83	2	160	41	5	14	39	1.68
4675315--4675686	46	8.6	45	83	12	469	34	14	22	29	1.93
4675399--4675554	36	4.1	36	78	15	177	37	12	19	30	1.90
4675353--4675686	82	4.0	81	86	7	456	34	14	21	29	1.93
4675315--4675686	128	2.9	126	78	16	440	34	14	22	29	1.93
4678207--4678235	9	3.2	9	100	0	58	20	0	0	79	0.74
4678169--4678268	48	2.1	48	90	5	157	33	2	0	65	1.04
4678240--4678288	22	2.2	21	82	10	62	34	0	4	61	1.15
4685333--4685374	12	3.6	12	75	18	52	23	2	0	73	0.94
4685329--4685376	23	2.1	23	100	0	96	27	6	0	66	1.15
4717275--4717310	17	2.1	17	100	0	72	41	0	16	41	1.48
4718307--4718474	91	1.8	91	97	0	318	48	3	1	46	1.30
4718566--4718842	37	7.7	35	65	22	121	43	1	6	48	1.38
4718624--4718669	16	2.9	16	78	12	51	45	0	2	52	1.13
4718559--4719120	107	5.0	109	90	7	828	42	1	6	49	1.37
4718620--4719116	227	2.1	232	86	9	708	42	1	5	49	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4718829--4718880	15	3.6	15	80	12	56	44	0	1	53	1.11
4718359--4719118	334	2.3	341	86	7	1058	43	2	5	48	1.37
4718774--4719101	117	2.8	117	97	1	604	42	1	6	49	1.39
4719062--4719110	15	2.9	18	80	20	61	44	0	0	55	0.99
4719062--4719116	15	3.4	16	80	16	53	43	0	1	54	1.10
4719332--4719367	16	2.2	16	100	0	72	38	36	0	25	1.56
4724343--4724395	8	6.4	8	77	16	54	13	5	1	79	0.99
4724412--4724451	18	2.4	16	87	8	53	15	2	5	77	1.04
4737279--4737336	20	2.8	20	85	10	73	32	1	0	65	1.03
4737605--4737639	16	2.3	16	90	9	56	62	0	2	34	1.10
4737730--4737764	3	11.7	3	100	0	70	34	0	0	65	0.93
4738153--4738193	20	2.0	20	85	4	55	36	0	4	58	1.20
4738808--4738911	45	2.4	43	90	6	158	27	25	12	34	1.92
4738847--4738965	59	2.0	62	85	12	167	31	26	9	33	1.88
4738953--4739017	33	1.9	34	93	3	114	29	21	10	38	1.87
4738915--4739058	79	1.9	76	88	7	218	31	21	11	36	1.88
4759055--4759086	9	3.4	9	95	4	55	12	3	0	84	0.74
4759030--4759086	18	3.2	16	78	14	51	14	5	1	78	0.99
4759035--4759076	14	3.2	13	80	9	50	11	7	0	80	0.88
4759100--4759138	17	2.4	16	91	4	60	15	2	5	76	1.06
4772245--4772282	16	2.3	17	86	9	60	36	0	0	63	0.95
4772564--4772607	16	3.0	15	87	12	65	65	0	2	31	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4772704--4772738	3	11.7	3	100	0	70	34	0	0	65	0.93
4773020--4773061	15	2.7	15	79	17	50	50	0	0	50	1.00
4773818--4774077	46	5.6	46	71	22	195	29	22	13	35	1.92
4773859--4773981	62	2.0	63	91	6	205	30	25	10	33	1.90
4773969--4774039	36	2.0	36	94	0	124	28	19	12	39	1.88
4773925--4774077	82	1.9	80	91	2	252	30	21	12	35	1.90
4776870--4776908	15	2.5	15	87	4	51	25	7	0	66	1.18
4784096--4784145	20	2.5	21	90	9	86	52	10	4	34	1.54
4787272--4787314	16	2.6	16	77	3	50	39	0	2	58	1.11
4788527--4788641	51	2.3	51	95	0	212	43	4	6	46	1.48
4798302--4798385	42	2.0	42	88	6	125	16	20	16	46	1.84
4799233--4799305	27	2.7	26	75	8	74	65	0	2	31	1.06
4800885--4800963	27	2.9	27	94	0	131	29	21	32	16	1.95
4801035--4801104	19	3.7	19	82	3	97	37	10	0	52	1.35
4801040--4801110	37	1.9	37	100	0	142	39	11	0	49	1.39
4801305--4801363	19	3.2	19	80	4	84	38	11	0	49	1.40
4801360--4801406	18	2.6	19	83	6	53	53	0	10	36	1.36
4801375--4801415	19	2.1	19	86	4	55	53	0	9	36	1.34
4801617--4801687	37	1.9	37	100	0	142	49	0	11	39	1.39
4801623--4801691	19	3.7	19	82	5	97	52	0	10	37	1.36
4801762--4801844	27	3.1	26	87	1	112	19	31	20	28	1.97
4801768--4801853	27	3.2	27	84	0	82	17	29	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4801920--4801969	27	2.0	25	88	11	75	52	0	12	36	1.39
4803795--4803828	17	2.0	17	94	0	59	85	2	11	0	0.71
4811398--4811459	17	3.6	17	70	25	51	56	1	0	41	1.09
4811395--4811444	18	2.6	20	78	18	61	58	0	0	42	0.98
4812416--4812456	18	2.3	18	87	8	57	46	0	0	53	1.00
4815210--4815261	23	2.3	22	75	21	54	9	23	1	65	1.32
4815255--4815293	18	2.2	18	85	0	51	12	23	2	61	1.43
4819454--4819490	19	1.9	19	100	0	74	48	16	5	29	1.68
4834302--4834341	18	2.1	20	90	9	66	47	0	0	52	1.00
4838593--4838634	21	2.0	21	90	0	66	66	4	7	21	1.35
4842472--4842534	32	2.0	32	96	3	119	49	12	6	31	1.66
4848054--4848118	32	2.1	32	97	2	123	47	12	9	30	1.72
4856644--4856689	22	2.0	23	84	12	60	67	2	4	26	1.21
4856644--4856689	23	2.0	23	83	8	58	67	2	4	26	1.21
4856979--4857044	30	2.2	28	82	12	71	34	1	0	63	1.04
4857171--4857375	87	2.3	90	85	6	258	33	11	16	39	1.84
4861846--4861892	22	2.1	22	100	0	94	46	8	4	40	1.54
4870411--4870460	15	3.6	14	79	12	50	42	2	2	54	1.23
4875260--4875295	3	12.3	3	94	5	65	69	0	30	0	0.89
4886619--4886653	10	3.5	10	88	0	52	22	2	0	74	0.95
4901239--4901274	19	1.9	18	88	5	54	75	2	0	22	0.94
4917944--4918016	26	2.8	26	83	2	85	15	27	24	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4918102--4918164	25	2.6	25	80	16	71	25	23	15	34	1.95
4918113--4918180	25	2.7	26	80	8	79	25	22	17	35	1.95
4921032--4921112	40	2.0	40	100	0	162	43	27	14	14	1.85
4921927--4922300	51	7.4	51	90	1	574	31	24	12	31	1.93
4921927--4922300	101	3.7	101	89	0	570	31	24	12	31	1.93
4921924--4922300	152	2.5	152	91	0	594	31	24	12	31	1.92
4922374--4922406	17	1.9	17	88	11	50	45	21	0	33	1.52
4925496--4925556	31	2.0	31	87	6	88	63	0	1	34	1.04
4937230--4937272	20	2.2	20	86	0	59	76	4	13	4	1.10
4938745--4938960	83	2.6	84	90	0	344	41	9	13	35	1.77
4946559--4946708	80	1.9	79	92	1	255	27	18	16	38	1.92
4951963--4952003	21	2.0	21	85	9	57	29	4	7	58	1.46
4964042--4964070	14	2.0	15	93	6	51	68	3	0	27	1.05
4965343--4965455	17	6.8	17	70	26	91	53	6	3	37	1.43
4965379--4965440	12	5.0	12	74	25	58	50	6	1	41	1.38
4965395--4965469	29	2.6	29	93	2	123	48	6	4	41	1.48
4967144--4967169	13	2.0	13	100	0	52	23	0	0	76	0.78
4975022--4975055	16	2.1	16	88	5	50	38	2	5	52	1.41
4978798--4978829	8	4.0	8	100	0	64	50	0	0	50	1.00
4979918--4980068	57	2.7	56	80	5	178	49	11	5	33	1.64
4980568--4980647	21	3.7	21	71	3	52	37	7	2	52	1.43
4981238--4981262	2	12.5	2	100	0	50	0	52	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4981689--4981726	18	2.2	18	85	4	51	13	23	2	60	1.45
4984886--4985194	166	1.9	165	85	5	426	33	5	15	44	1.69
4987230--4987307	38	2.1	38	100	0	156	33	25	20	20	1.97
4990100--4990163	31	2.2	30	83	13	80	50	9	7	32	1.64
5002124--5002153	15	2.1	15	93	6	53	23	20	3	53	1.60
5002868--5002908	22	1.9	21	85	5	55	53	0	0	46	1.00
5002897--5002949	23	2.3	23	83	0	61	37	1	7	52	1.41
5004962--5005024	24	2.6	24	89	0	90	19	33	19	28	1.96
5006326--5006394	9	8.4	8	72	21	54	59	1	7	31	1.33
5006348--5006395	3	15.7	3	83	12	62	64	0	4	31	1.12

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