genome.fa.s4.2.7.7.80.10.50.1000.15.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   

This is table  15  of  253  ( 30316 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)
4316982--4317096	30	3.8	30	92	0	194	25	49	3	21	1.65
4317647--4317696	13	4.1	12	80	16	50	32	4	0	64	1.12
4317714--4317771	25	2.5	24	78	10	66	34	8	6	50	1.60
4317729--4317797	25	2.9	24	81	10	79	31	7	5	55	1.51
4325456--4325583	18	6.9	19	67	19	56	64	5	3	25	1.32
4325553--4325745	3	63.3	3	70	14	119	60	2	7	30	1.37
4325888--4325933	23	2.0	23	91	4	74	63	0	8	28	1.24
4326776--4326809	17	1.9	18	88	5	52	82	2	2	11	0.89
4327624--4327992	43	8.5	43	75	7	192	20	24	21	33	1.97
4327668--4328045	87	4.4	87	83	1	517	21	23	20	33	1.97
4327712--4328042	43	7.7	43	74	6	292	22	22	20	34	1.97
4329857--4330031	30	5.8	30	93	0	296	25	49	3	22	1.65
4329857--4330031	60	2.9	60	98	0	332	25	49	3	22	1.65
4330536--4330733	25	7.8	25	70	12	102	34	6	3	55	1.43
4330594--4330656	14	4.9	13	71	21	53	34	3	0	61	1.12
4330854--4330934	16	4.8	16	76	23	69	30	2	1	65	1.13
4330883--4330934	8	6.5	8	82	8	61	30	1	1	65	1.14
4337082--4337134	26	2.0	26	100	0	106	26	32	18	22	1.97
4338432--4338605	71	2.5	69	84	5	208	28	14	22	33	1.94
4338609--4338827	71	3.1	70	83	8	248	27	15	21	35	1.94
4338818--4338852	14	2.5	14	95	0	61	17	14	8	60	1.58
4338745--4339088	89	4.1	84	76	15	313	25	17	20	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4338675--4339277	164	3.8	161	83	9	663	27	16	20	34	1.94
4338996--4339302	72	4.0	78	82	10	341	30	15	19	34	1.93
4339435--4339575	71	2.0	73	91	2	232	21	15	24	38	1.92
4339427--4339729	160	1.9	160	88	4	459	27	15	22	35	1.94
4339586--4339767	74	2.5	73	90	2	278	30	15	21	31	1.95
4340479--4340653	30	5.8	30	93	0	296	24	48	4	22	1.68
4341141--4341270	23	5.5	23	67	22	74	34	4	2	58	1.31
4341158--4341356	25	7.8	25	70	13	95	34	6	3	55	1.43
4341477--4341557	16	4.8	16	76	23	69	30	2	1	65	1.13
4341506--4341557	8	6.5	8	82	8	61	30	1	1	65	1.14
4347974--4348019	23	2.0	23	100	0	92	21	17	21	39	1.93
4348515--4348546	9	3.7	9	95	4	57	43	12	21	21	1.86
4352055--4352174	26	4.8	24	66	13	62	60	1	7	30	1.34
4352052--4352226	3	57.3	3	69	16	101	60	1	8	30	1.36
4352369--4352414	23	2.0	23	91	4	74	63	0	8	28	1.24
4353223--4353248	5	5.2	5	100	0	52	80	0	0	19	0.71
4353232--4353265	17	1.9	18	88	5	52	82	2	2	11	0.89
4354975--4355018	23	1.9	23	90	0	70	40	15	15	27	1.88
4358243--4358308	31	2.1	31	91	5	107	39	7	12	40	1.71
4362661--4362704	23	2.0	22	95	4	79	34	13	4	47	1.63
4368141--4368188	21	2.2	22	85	3	62	35	2	2	60	1.20
4370626--4370681	17	3.1	18	84	7	78	48	10	10	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4370626--4370903	19	15.1	19	67	19	101	45	11	11	31	1.76
4370813--4370868	16	3.4	16	75	4	58	44	8	10	35	1.71
4370838--4370874	17	2.2	17	95	4	67	48	5	5	40	1.49
4370873--4370923	25	2.0	25	84	7	66	52	13	11	21	1.72
4370981--4371072	24	4.2	23	81	12	104	38	11	7	42	1.70
4371051--4371085	18	1.9	18	88	0	52	48	14	11	25	1.77
4371695--4371725	14	2.2	14	94	0	53	6	22	45	25	1.76
4371746--4371776	7	4.4	7	100	0	62	12	0	0	87	0.55
4371768--4371812	23	2.1	21	84	12	56	2	22	0	75	0.91
4371776--4371823	21	2.2	23	85	7	64	0	29	0	70	0.87
4372335--4372421	29	3.0	29	78	8	95	47	2	18	32	1.61
4372350--4372450	30	3.4	30	82	4	107	43	3	21	30	1.71
4372722--4372940	54	4.1	55	86	9	308	36	16	16	29	1.91
4372722--4372932	107	2.0	104	89	4	325	36	17	16	29	1.92
4372919--4372953	14	2.5	14	90	0	52	60	2	17	20	1.49
4373044--4373297	91	2.9	89	82	8	324	36	18	18	26	1.94
4373571--4373795	122	1.9	120	81	5	274	35	20	13	30	1.92
4373255--4374250	192	5.2	192	96	1	1820	35	20	13	30	1.91
4385510--4385599	44	2.1	43	93	2	153	26	30	24	18	1.98
4385959--4386064	16	6.2	16	70	21	56	47	11	10	31	1.73
4385966--4386073	53	2.0	54	85	5	148	50	10	9	29	1.67
4386047--4386095	17	2.8	17	84	6	62	44	12	6	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4386112--4386209	18	5.5	18	68	15	60	41	11	16	30	1.83
4386109--4386209	34	2.9	35	79	7	116	41	10	15	31	1.82
4386262--4386367	16	6.5	17	69	17	64	44	7	18	29	1.77
4386319--4386368	17	3.0	17	76	2	57	44	10	16	30	1.80
4386454--4386485	16	1.9	17	93	6	57	43	9	25	21	1.82
4386391--4386531	52	2.7	50	79	7	140	51	7	9	31	1.62
4386493--4386611	34	3.4	34	79	14	116	50	5	10	32	1.61
4386556--4386624	18	3.9	18	83	7	97	50	8	11	28	1.68
4386466--4386624	72	2.2	70	75	7	167	50	6	11	30	1.64
4386727--4386767	20	2.1	19	90	4	64	41	9	14	34	1.79
4387262--4387322	23	2.7	23	90	5	99	0	24	8	67	1.18
4387262--4387329	23	3.0	23	83	12	88	0	22	8	69	1.16
4387407--4387447	20	2.0	20	85	4	55	0	24	0	75	0.80
4387791--4387901	30	3.7	29	77	12	91	45	2	23	28	1.67
4387806--4387901	30	3.2	30	85	2	131	44	3	23	28	1.68
4390541--4390587	18	2.6	18	83	6	60	34	0	2	63	1.06
4394106--4394164	31	1.9	31	89	0	91	44	6	8	40	1.61
4395110--4395184	29	2.6	29	81	12	84	60	1	1	37	1.14
4395410--4395445	18	2.0	18	94	0	63	47	2	0	50	1.15
4395466--4395541	29	2.6	30	76	4	82	34	0	1	64	1.02
4396161--4396210	17	3.0	16	82	5	55	68	2	2	28	1.12
4396263--4396366	51	2.0	51	96	0	190	44	7	6	41	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4397350--4397397	19	2.6	18	84	15	55	27	0	6	66	1.15
4399156--4399184	15	1.9	15	100	0	58	37	6	48	6	1.57
4400022--4400067	20	2.3	21	82	14	62	26	17	28	28	1.98
4409201--4409252	12	4.3	11	77	20	50	76	0	1	21	0.87
4409199--4409251	27	2.0	27	85	3	72	73	0	1	24	0.93
4412550--4412594	23	1.9	24	86	4	65	51	2	2	44	1.26
4412592--4412655	20	3.0	20	81	6	65	37	0	3	59	1.13
4417508--4417536	14	2.1	14	100	0	58	20	6	6	65	1.40
4421453--4421540	45	2.0	45	93	0	149	21	17	17	44	1.87
4425909--4425996	39	2.2	38	84	13	106	56	1	1	40	1.14
4425944--4425982	18	2.2	18	85	0	51	56	0	0	43	0.99
4429180--4429219	16	2.5	16	88	8	55	25	10	2	62	1.39
4429189--4429281	27	3.6	27	74	16	72	23	12	2	61	1.43
4429359--4429413	3	18.3	3	100	0	110	32	0	0	67	0.91
4434498--4434593	48	2.0	48	91	4	158	43	12	18	25	1.85
4436269--4436562	130	2.3	125	75	12	279	56	11	1	30	1.44
4443150--4443190	18	2.3	18	87	8	57	17	31	29	21	1.96
4443380--4443515	36	3.8	36	71	7	105	33	21	18	27	1.96
4446229--4446336	26	4.2	26	93	0	189	34	25	8	32	1.86
4446602--4446673	29	2.6	29	84	4	94	26	27	22	23	1.99
4446607--4446726	29	4.2	28	78	6	89	29	28	19	23	1.98
4446684--4446727	15	3.0	15	83	3	54	29	22	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4450168--4450460	132	2.2	131	80	5	322	34	21	18	25	1.96
4464637--4464718	26	3.2	26	89	0	128	31	7	24	36	1.83
4473888--4473924	18	2.1	18	100	0	74	21	0	40	37	1.54
4474310--4474369	23	2.5	24	86	5	86	21	5	5	68	1.29
4482325--4482366	22	1.9	21	85	9	57	26	2	2	69	1.13
4482464--4482558	31	3.1	29	80	15	118	33	6	1	58	1.30
4482668--4482699	3	11.0	3	93	6	57	31	0	0	68	0.90
4490068--4490248	98	1.8	98	85	2	256	31	16	23	29	1.96
4490160--4490284	45	2.8	44	80	6	135	29	19	22	28	1.98
4493246--4493293	20	2.3	22	85	10	73	16	4	8	70	1.27

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   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253