genome.fa.s15.2.7.7.80.10.50.1000.13.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  13  of  222  ( 26535 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)
4223957--4224015	20	2.9	19	83	16	75	64	1	3	30	1.20
4227729--4227771	19	2.2	20	95	4	79	41	0	32	25	1.56
4230932--4231000	25	2.7	25	86	2	93	21	11	7	59	1.56
4230930--4231007	26	3.0	26	83	3	77	24	12	6	56	1.60
4238792--4238816	6	4.2	6	100	0	50	84	0	16	0	0.63
4239612--4239687	34	2.2	34	93	4	127	21	23	14	40	1.90
4250179--4250208	16	1.9	16	93	6	53	53	3	10	33	1.51
4251217--4251243	5	5.4	5	100	0	54	0	0	18	81	0.69
4265342--4265437	28	3.5	26	75	12	75	66	1	4	28	1.16
4265539--4265597	29	2.0	30	90	3	93	27	5	16	50	1.66
4265544--4265612	29	2.3	29	85	9	86	30	5	13	50	1.64
4266369--4266424	22	2.8	20	77	15	62	32	0	1	66	1.03
4266369--4266428	21	2.9	21	76	13	63	35	0	1	63	1.05
4266449--4266523	26	2.9	26	71	11	64	36	1	1	61	1.13
4266449--4266586	10	15.0	9	67	20	56	31	2	2	63	1.21
4266539--4266586	19	2.6	18	80	6	60	31	4	0	64	1.12
4266502--4266576	29	2.5	30	79	10	82	28	4	2	65	1.24
4270109--4270152	22	2.0	22	82	8	54	50	6	4	38	1.50
4271237--4271300	30	2.2	28	81	18	69	57	1	4	35	1.29
4271244--4271306	30	2.0	34	87	12	98	52	1	4	41	1.32
4271582--4271682	47	2.4	38	73	25	112	49	2	3	43	1.36
4271595--4271684	47	1.9	47	97	0	171	44	4	4	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273463--4273489	4	6.8	4	100	0	54	77	0	22	0	0.76
4274896--4274966	23	3.0	23	93	4	124	35	11	8	45	1.70
4293411--4293526	59	2.0	59	86	1	162	28	12	19	38	1.89
4293769--4293832	29	2.2	30	77	11	69	39	6	1	53	1.36
4294102--4294295	104	1.8	106	82	9	254	42	10	2	44	1.53
4294561--4294618	31	1.9	31	89	3	91	27	12	13	46	1.79
4295984--4296016	15	2.3	15	89	5	50	36	3	0	60	1.12
4296558--4296601	21	2.1	21	91	0	70	50	27	11	11	1.72
4297020--4297153	66	2.0	66	95	0	241	37	10	29	23	1.88
4300312--4300355	22	2.0	22	82	4	54	45	0	0	54	0.99
4300380--4300422	6	7.0	6	80	15	52	34	2	0	62	1.08
4301046--4301088	20	2.2	20	84	8	54	55	23	2	18	1.54
4305665--4305753	47	1.9	46	81	6	108	30	7	16	44	1.76
4305694--4305753	23	2.6	23	76	5	68	30	8	20	41	1.81
4306833--4306880	19	2.7	18	75	9	53	60	0	4	35	1.16
4307207--4307252	22	2.2	22	84	7	60	26	4	0	69	1.07
4307646--4307683	20	1.9	20	89	10	60	34	0	0	65	0.93
4319037--4319117	39	2.1	39	81	2	92	29	7	13	49	1.69
4332049--4332129	29	2.8	28	83	9	90	33	6	3	56	1.42
4335966--4335999	11	3.0	11	91	4	50	32	0	0	67	0.91
4342873--4342963	44	2.0	45	83	10	116	35	5	27	31	1.80
4343175--4343344	38	4.3	38	69	16	137	53	4	1	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4343100--4343422	120	2.7	120	96	1	585	52	4	0	43	1.26
4345982--4346078	38	2.6	38	81	12	105	63	9	24	2	1.34
4354618--4354677	20	3.0	20	92	0	93	48	6	1	43	1.39
4354618--4354684	20	3.4	18	82	13	71	49	5	1	43	1.36
4359090--4359118	4	7.2	4	100	0	58	24	0	0	75	0.80
4359644--4359850	109	1.9	109	88	0	315	30	15	17	36	1.91
4366183--4366505	44	7.3	45	77	4	318	29	25	16	28	1.97
4366183--4366505	132	2.4	132	92	0	538	29	25	16	28	1.97
4373442--4373787	191	1.8	191	88	0	530	29	18	22	29	1.97
4378397--4378716	55	5.9	54	89	4	477	24	20	1	53	1.54
4378397--4378718	109	3.0	105	87	8	452	23	21	1	53	1.55
4378476--4378563	29	3.1	29	60	15	67	25	21	0	53	1.46
4379846--4380343	108	4.7	103	81	7	515	33	14	13	39	1.85
4382555--4382700	59	2.4	61	76	6	145	59	10	6	22	1.54
4384038--4384111	33	2.3	33	97	2	141	40	25	4	29	1.74
4386096--4386163	22	3.4	22	69	23	76	35	2	16	45	1.62
4386093--4386170	38	2.1	38	95	0	138	30	2	15	51	1.57
4394669--4394762	49	1.9	49	86	4	136	42	10	8	38	1.70
4397546--4397593	24	2.0	25	91	4	80	39	14	12	33	1.84
4415577--4415644	22	3.4	22	69	23	76	35	2	16	45	1.62
4415574--4415651	38	2.1	38	95	0	138	30	2	15	51	1.57
4424155--4424248	49	1.9	49	86	4	136	42	10	8	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4427034--4427081	24	2.0	25	91	4	80	39	14	12	33	1.84
4430933--4430965	17	1.9	17	93	0	57	6	42	0	51	1.26
4437516--4437541	6	4.3	6	100	0	52	15	0	69	15	1.20
4440666--4440838	86	2.0	86	95	0	310	19	10	29	41	1.84
4443880--4443976	49	2.0	49	87	4	142	20	15	18	45	1.85
4444241--4444310	31	2.2	33	82	12	85	55	5	1	37	1.32
4445970--4446015	23	2.0	23	100	0	92	30	4	30	34	1.77
4452767--4452823	15	3.7	15	78	2	51	26	19	1	52	1.55
4454127--4454169	14	3.3	14	75	18	56	32	11	20	34	1.89
4455220--4455354	57	2.4	56	81	4	164	33	11	17	37	1.87
4455218--4455385	57	2.9	56	73	13	162	30	13	17	39	1.87
4456600--4456634	6	5.8	6	100	0	70	65	17	0	17	1.27
4456674--4456722	9	5.4	9	90	0	80	24	10	24	40	1.86
4456674--4456722	18	2.7	18	100	0	98	24	10	24	40	1.86
4458180--4458239	24	2.4	25	78	10	70	35	3	6	55	1.43
4463138--4463167	15	2.0	15	93	0	51	36	13	0	50	1.42
4465823--4465976	57	2.7	56	77	11	168	31	14	18	35	1.92
4466174--4466267	49	1.9	48	85	8	127	43	10	7	38	1.68
4467274--4467390	56	2.1	57	82	4	139	29	14	18	36	1.91
4473990--4474604	115	5.4	114	81	3	612	23	21	26	28	1.99
4474177--4474604	229	1.9	229	90	1	687	22	21	26	30	1.98
4475350--4475589	82	2.9	82	85	3	313	29	1	24	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4475275--4475465	102	1.9	101	89	5	296	25	0	29	43	1.59
4475426--4475472	14	3.5	13	80	16	51	14	0	42	42	1.46
4475350--4475589	83	2.9	81	86	6	313	29	1	24	45	1.61
4475717--4475919	84	2.4	82	79	10	205	30	17	20	31	1.96
4475779--4475935	84	1.9	84	86	5	228	28	17	21	32	1.96
4475784--4475954	84	2.0	84	84	6	222	27	16	22	33	1.96
4476189--4476437	84	3.0	82	83	8	256	32	16	20	31	1.94
4476243--4476470	84	2.7	83	82	4	271	29	17	21	31	1.96
4479039--4479209	9	18.9	10	79	13	99	49	14	2	33	1.56
4479032--4479241	18	11.7	18	76	11	155	51	13	1	32	1.52
4479031--4479255	36	6.2	37	83	5	214	51	13	2	32	1.55
4479038--4479239	54	3.7	54	88	5	275	51	13	1	32	1.52
4479056--4479239	27	6.8	27	91	1	246	52	13	2	32	1.52
4480757--4481346	293	2.0	293	98	0	1144	25	17	24	31	1.97
4485175--4485245	21	3.4	21	78	0	79	29	15	47	7	1.71
4485562--4485678	42	2.8	42	90	0	180	35	23	19	22	1.96
4494855--4494906	24	2.2	24	89	0	77	55	9	1	32	1.43
4504319--4504375	21	2.7	22	76	17	75	38	12	3	45	1.59
4514310--4514334	3	8.3	3	100	0	50	68	0	0	32	0.90
4521569--4521821	46	5.6	46	93	2	424	29	22	15	32	1.95
4521569--4521821	91	2.8	91	94	1	438	29	22	15	32	1.95
4538337--4538363	6	4.5	6	100	0	54	14	66	18	0	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4552136--4552195	19	3.2	19	79	11	61	53	6	1	38	1.37
4560630--4560925	134	2.2	134	80	7	325	40	8	9	41	1.68
4561044--4561300	137	1.9	134	79	7	286	38	12	12	36	1.80
4566920--4566980	30	2.0	30	87	6	88	16	4	50	27	1.65
4566952--4567047	42	2.3	42	90	0	156	13	8	54	23	1.66
4567002--4567086	33	2.6	33	86	0	107	11	9	55	23	1.65
4567064--4567194	51	2.5	54	87	7	205	14	10	49	25	1.75
4567061--4567210	51	2.9	50	77	10	158	15	10	49	24	1.76
4568429--4568563	67	2.0	65	84	4	171	27	16	12	43	1.84
4575468--4575493	2	13.0	2	100	0	52	50	0	0	50	1.00

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   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