genome.fa.s15.2.7.7.80.10.50.1000.15.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: 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  15  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)
4892169--4892207	5	7.8	5	100	0	78	61	0	0	38	0.96
4894225--4894335	55	2.0	55	98	0	213	33	13	9	44	1.75
4894609--4894659	21	2.5	20	81	9	57	41	3	17	37	1.68
4894800--4894853	23	2.3	23	80	0	63	57	0	3	38	1.17
4895327--4895351	6	4.2	6	100	0	50	80	0	0	20	0.72
4896677--4896748	30	2.5	29	73	20	69	68	1	1	29	1.07
4899719--4899958	50	4.7	50	76	6	171	29	20	27	22	1.99
4900169--4900207	12	3.2	12	96	0	69	58	2	15	23	1.49
4903961--4904202	50	4.7	50	79	5	220	23	26	22	27	1.99
4907715--4907755	20	2.0	20	95	0	73	46	4	17	31	1.69
4911329--4911353	13	1.9	13	100	0	50	68	0	0	32	0.90
4921323--4921745	72	5.8	73	80	5	403	38	14	21	25	1.91
4921318--4921697	145	2.6	144	80	6	419	38	14	22	25	1.92
4921324--4921745	217	1.9	217	85	2	571	38	13	22	25	1.91
4924583--4924629	23	2.0	23	100	0	94	21	12	21	44	1.85
4924606--4924995	139	2.8	140	88	1	588	31	22	18	27	1.97
4926979--4927030	26	2.0	26	96	0	95	13	23	34	28	1.92
4926796--4927062	105	2.6	105	92	2	441	18	20	30	29	1.97
4934191--4934388	41	4.8	41	92	0	315	33	28	19	18	1.96
4935579--4935677	42	2.4	42	85	0	126	27	26	10	36	1.88
4940698--4940737	18	2.2	19	86	13	57	60	0	7	32	1.25
4948845--4948881	19	2.1	19	90	10	60	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948830--4948888	23	2.6	22	89	10	84	35	0	0	64	0.94
4957504--4957536	12	2.8	12	95	0	57	42	6	0	51	1.26
4966174--4966227	21	2.6	21	93	0	90	29	7	33	29	1.85
4990505--4990637	59	2.3	57	84	8	164	30	9	1	58	1.38
4990567--4990714	69	2.2	68	80	1	161	27	8	4	59	1.47
4990704--4990733	4	7.5	4	100	0	60	26	0	0	73	0.84
4990630--4990803	85	2.1	84	82	5	208	26	7	4	62	1.40
4996427--4996496	27	2.5	28	84	11	81	38	18	1	41	1.60
4997146--4997206	23	2.5	22	82	15	68	47	11	1	39	1.50
5000651--5000694	23	1.9	23	86	9	63	59	4	4	31	1.38
5000648--5000698	23	2.2	23	75	6	59	52	3	3	39	1.38
5001881--5001970	39	2.2	41	86	3	121	53	6	2	37	1.40
5002078--5002146	31	2.2	31	80	19	81	52	2	0	44	1.16
5003112--5003168	21	2.5	22	81	16	64	45	1	5	47	1.35
5003325--5003364	17	2.4	17	84	12	55	25	7	0	67	1.16
5005886--5005920	18	1.9	18	94	0	61	34	28	25	11	1.91
5007383--5007488	9	11.9	9	70	13	67	57	0	2	38	1.20
5007420--5007494	10	7.9	10	70	15	52	60	1	4	34	1.24
5007626--5007657	15	2.0	17	88	11	50	28	6	9	56	1.55
5007982--5008014	15	2.1	17	88	11	52	24	0	6	69	1.10
5015578--5015630	27	2.0	27	96	0	97	41	15	15	28	1.87
5015577--5015648	27	2.5	27	84	8	90	41	12	16	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5016556--5016628	36	2.0	36	86	5	103	28	15	30	26	1.96
5026495--5026521	14	1.9	14	100	0	54	51	0	11	37	1.37
5042907--5042948	19	2.2	19	91	0	66	35	26	9	28	1.88
5043809--5043849	21	1.9	21	85	5	55	31	2	0	65	1.05
5048698--5048728	15	2.1	15	94	5	55	35	0	22	41	1.54
5050855--5051289	222	2.0	221	87	4	635	26	19	19	34	1.95
5055074--5055114	21	2.0	21	90	0	64	29	21	29	19	1.98
5063649--5063692	23	1.9	23	86	9	54	54	4	2	38	1.33
5064473--5064643	82	2.1	81	96	2	324	39	5	16	38	1.72
5066665--5066706	21	2.1	19	86	8	57	52	7	2	38	1.42
5069998--5070823	156	5.4	152	85	8	1107	30	10	8	51	1.65
5069998--5070823	154	5.4	154	86	6	1115	30	10	8	51	1.65
5069996--5070823	312	2.7	306	92	2	1349	29	10	8	51	1.65
5071298--5071323	2	13.0	2	100	0	52	50	0	0	50	1.00
5076830--5076858	4	7.2	4	100	0	58	51	0	0	48	1.00
5078066--5078136	35	2.0	35	91	0	115	35	8	7	49	1.60
5082572--5082908	160	2.1	159	94	0	584	23	16	15	45	1.85
5084457--5084491	2	18.0	2	88	5	54	48	0	0	51	1.00
5091191--5091270	42	2.0	41	87	5	117	41	11	13	33	1.80
5091534--5091581	20	2.5	20	82	3	53	20	2	33	43	1.64
5092589--5092638	24	2.1	24	88	0	73	50	10	4	36	1.55
5106041--5106091	25	2.0	25	96	0	93	23	41	11	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109605--5109634	2	15.0	2	100	0	60	50	0	50	0	1.00
5113542--5113584	19	2.3	18	80	4	50	41	0	4	53	1.21
5131693--5131814	22	5.3	22	62	21	61	25	29	11	33	1.91
5131666--5132261	47	12.6	47	92	2	851	28	29	9	33	1.88
5131666--5132261	96	6.3	94	92	1	851	28	29	9	33	1.88
5133708--5133827	56	2.1	56	98	0	231	22	23	9	45	1.81
5135109--5135531	40	10.6	40	87	3	566	25	27	22	24	2.00
5137841--5137962	22	5.3	22	62	21	61	25	29	11	33	1.91
5137814--5138360	47	11.6	47	92	2	798	27	29	9	33	1.88
5137834--5138347	143	3.6	142	93	2	822	27	29	9	32	1.89
5140380--5140628	50	4.8	50	85	4	284	20	29	24	26	1.99
5140379--5140628	100	2.4	104	88	6	357	20	29	24	26	1.99
5140723--5140754	13	2.5	13	94	0	55	56	12	0	31	1.37
5140966--5141023	30	1.9	30	89	0	89	31	24	3	41	1.71
5141026--5141081	28	2.0	28	100	0	112	28	21	14	35	1.92
5142609--5142728	56	2.1	56	98	0	231	22	23	9	45	1.81
5145174--5145561	125	3.1	125	90	2	595	27	18	14	39	1.90
5145496--5145675	100	1.8	99	87	1	270	24	18	11	46	1.81
5145226--5145882	351	1.9	350	89	2	1014	26	17	13	41	1.87
5145584--5146313	125	5.7	126	79	9	735	26	17	14	41	1.87
5145584--5146270	127	5.4	132	78	11	618	27	17	14	41	1.87
5155039--5155098	11	5.1	11	77	15	66	36	18	0	45	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155040--5155095	13	4.4	13	82	11	71	37	14	0	48	1.44
5155039--5155098	24	2.5	24	100	0	120	36	18	0	45	1.50
5162645--5162742	46	2.1	46	96	0	178	32	13	25	28	1.93
5164073--5164099	13	2.1	13	100	0	54	37	0	14	48	1.45
5165620--5165712	18	5.2	18	85	0	123	29	23	15	32	1.95
5165624--5165712	36	2.5	36	90	0	142	29	23	14	32	1.94
5179756--5179794	18	2.2	18	90	0	60	35	15	23	25	1.94
5183667--5183719	24	2.3	23	80	6	61	7	16	11	64	1.48
5185175--5185220	25	1.9	23	86	8	65	28	13	19	39	1.89
5185539--5185605	25	2.6	25	76	9	64	46	8	1	43	1.44
5186049--5186090	11	3.8	11	80	0	57	69	23	2	4	1.20
5186042--5186090	22	2.2	22	92	7	82	67	22	4	6	1.30
5192519--5192692	87	2.0	87	100	0	348	43	16	3	36	1.64
5192988--5193041	23	2.4	22	81	3	63	59	3	1	35	1.26
5192989--5193038	11	4.5	11	77	5	55	60	4	2	34	1.27
5200684--5200728	3	15.0	3	100	0	90	33	0	33	33	1.58
5208229--5208271	4	10.8	4	100	0	86	48	25	0	25	1.51
5221592--5221681	40	2.3	40	86	5	121	25	8	14	51	1.71
5228590--5228637	18	2.7	18	74	6	53	56	2	2	39	1.23
5228712--5228777	34	1.9	34	87	6	98	45	15	7	31	1.74
5240964--5241023	26	2.3	27	91	2	95	25	0	0	75	0.81
5240964--5241035	27	2.7	27	87	6	85	22	0	2	75	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5240996--5241038	21	2.0	21	86	4	59	23	0	4	72	1.04
5253089--5253119	16	1.9	16	93	0	53	58	3	0	38	1.15
5253900--5253943	21	2.1	21	83	8	54	38	0	4	56	1.20
5261562--5261640	3	26.3	3	89	5	124	31	2	1	64	1.15
5262094--5262124	16	1.9	16	93	0	53	35	6	3	54	1.42
5275671--5275705	3	11.7	3	93	0	61	62	0	2	34	1.10
5277406--5277437	13	2.5	13	89	0	55	68	0	0	31	0.90
5277427--5277469	20	2.1	20	82	4	50	53	2	11	32	1.50
5281881--5281935	25	2.3	23	82	14	60	34	0	5	60	1.20
5281881--5281935	24	2.3	24	82	14	62	34	0	5	60	1.20

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