genome.fa.s26.2.7.7.80.10.50.1000.18.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  18  of  221  ( 26413 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)
5292440--5292564	9	14.0	9	71	19	75	29	3	1	65	1.17
5295872--5296075	102	2.0	102	85	3	277	30	17	14	37	1.90
5296463--5296739	138	2.0	138	100	0	554	38	9	15	35	1.80
5299763--5299868	34	2.9	36	77	14	92	63	2	3	30	1.26
5299763--5299826	16	3.8	16	77	22	60	67	3	3	26	1.21
5299764--5299830	17	3.9	16	75	19	57	65	2	2	28	1.22
5299887--5300019	9	13.5	10	70	12	55	62	3	0	33	1.16
5299906--5299953	23	2.0	24	84	11	64	58	4	0	37	1.18
5299867--5299999	72	1.9	68	84	9	178	59	3	0	36	1.21
5299891--5299958	21	3.1	22	75	17	54	57	4	0	38	1.19
5299936--5300019	28	3.0	28	79	8	89	60	3	1	34	1.21
5299936--5300008	37	2.0	37	86	0	101	58	2	1	36	1.21
5299950--5300008	9	6.4	9	86	3	73	64	1	1	32	1.13
5300492--5300612	9	13.6	9	68	20	67	29	3	1	65	1.18
5300515--5300580	21	3.3	20	75	10	64	33	1	1	63	1.13
5300572--5300604	17	2.0	17	94	5	59	24	3	0	72	0.98
5300572--5300612	17	2.5	15	88	11	55	26	4	0	68	1.10
5307609--5307660	26	2.0	26	82	17	65	50	1	0	48	1.12
5307634--5307668	15	2.2	16	90	5	54	60	2	0	37	1.12
5307799--5307828	15	2.0	15	100	0	60	13	13	20	53	1.72
5317064--5317092	3	9.7	3	100	0	58	68	0	0	31	0.89
5324311--5324348	12	3.2	12	85	3	51	68	2	15	13	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5327352--5327418	24	2.8	23	77	4	71	41	2	37	17	1.65
5328519--5328587	31	2.3	31	87	2	104	55	30	1	13	1.47
5336703--5336800	23	4.2	23	67	23	69	33	0	10	56	1.33
5336701--5336815	37	3.2	37	71	16	132	33	0	10	56	1.33
5336738--5336844	34	3.1	34	70	17	110	34	0	11	54	1.36
5336701--5336844	71	2.0	71	100	0	288	33	0	11	55	1.35
5336725--5336838	23	4.8	24	68	11	56	35	0	12	52	1.39
5336738--5336838	23	4.2	24	68	12	73	35	0	10	53	1.36
5338573--5338663	29	3.1	28	80	6	83	49	9	4	36	1.56
5339618--5339720	52	2.0	53	94	1	181	6	20	12	60	1.55
5344139--5344374	47	5.1	47	71	17	208	44	2	3	49	1.32
5344124--5344498	91	4.0	91	88	4	484	46	3	2	47	1.32
5344124--5344430	44	6.8	44	67	17	157	46	3	3	46	1.35
5344448--5344732	61	4.8	58	66	11	182	43	2	4	48	1.39
5344437--5344732	120	2.5	120	95	1	531	43	2	4	48	1.38
5344678--5344712	18	2.0	17	88	5	52	45	0	0	54	0.99
5344870--5344967	45	2.2	44	85	5	126	36	27	3	32	1.72
5348320--5348366	14	3.4	14	72	21	53	17	27	21	34	1.95
5350495--5350526	10	3.0	11	90	9	57	37	0	9	53	1.34
5351007--5351059	28	1.9	27	85	11	72	24	7	3	64	1.37
5354736--5354820	28	3.0	27	70	20	66	42	1	2	54	1.21
5379891--5379924	16	2.1	16	94	0	59	41	2	5	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5385085--5385147	30	2.1	29	85	2	81	34	9	7	47	1.65
5385281--5385359	31	2.6	31	82	9	83	40	10	11	37	1.75
5386557--5386805	124	2.0	126	90	1	394	27	15	23	34	1.94
5388505--5388533	11	2.6	11	100	0	58	44	6	27	20	1.77
5392774--5392918	58	2.5	59	77	17	151	35	4	1	58	1.26
5392771--5392873	20	5.3	20	73	20	69	37	3	0	57	1.24
5392837--5392879	19	2.2	20	83	4	52	41	0	0	58	0.98
5392817--5392912	11	8.7	11	70	23	60	37	1	2	59	1.16
5393625--5393659	15	2.3	15	90	5	52	34	2	5	57	1.37
5395144--5395265	23	5.3	23	83	0	154	22	18	24	33	1.97
5395144--5395265	46	2.7	46	90	0	181	22	18	24	33	1.97
5396928--5397106	46	4.0	46	94	2	301	28	22	16	32	1.95
5397080--5397131	25	2.1	25	100	0	104	34	13	23	28	1.92
5397034--5397177	71	2.0	71	98	0	279	31	18	18	31	1.94
5397105--5397269	46	3.6	46	95	0	303	30	19	16	33	1.94
5396988--5397223	117	2.0	117	96	0	436	31	18	16	33	1.94
5396945--5397412	163	2.9	163	97	1	870	30	19	16	33	1.94
5397034--5397386	117	3.0	117	85	8	429	31	18	16	32	1.94
5397243--5397294	25	2.1	25	100	0	104	34	13	23	28	1.92
5397197--5397340	71	2.0	71	98	0	279	31	18	18	31	1.94
5397268--5397412	46	3.2	46	94	1	256	30	20	15	33	1.93
5409140--5409182	23	1.9	22	81	13	52	44	4	6	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5412658--5412724	30	2.2	30	84	5	82	26	17	25	29	1.98
5412662--5412823	66	2.5	66	82	2	182	29	16	24	30	1.96
5415533--5415571	19	2.1	19	85	9	53	53	15	7	23	1.67
5425553--5425602	20	2.4	22	76	6	59	60	6	4	30	1.39
5427887--5427938	16	3.4	16	69	15	56	34	0	9	55	1.32
5428919--5428946	12	2.3	12	100	0	56	46	14	10	28	1.78
5429225--5429269	24	2.0	24	86	8	67	33	8	6	51	1.59
5439606--5439660	26	2.3	23	78	12	58	38	18	12	30	1.88
5447159--5447311	15	10.3	15	70	8	62	17	9	57	15	1.64
5447163--5447311	45	3.3	45	79	4	167	17	9	58	14	1.62
5447174--5447299	30	4.2	30	71	4	92	19	10	57	12	1.64
5448663--5448714	22	2.4	22	76	0	59	55	11	15	17	1.68
5456542--5456581	21	2.0	21	90	5	64	65	5	0	30	1.14
5458923--5459219	109	2.7	109	86	8	397	41	13	13	31	1.83
5459258--5459622	112	3.3	114	79	8	383	36	12	14	37	1.83
5459514--5459929	99	4.1	98	78	12	403	33	15	14	36	1.87
5459416--5459872	106	4.4	103	75	13	334	33	15	15	35	1.89
5459416--5459916	99	4.8	103	75	13	338	32	14	15	37	1.88
5459412--5459928	210	2.5	207	79	7	553	33	14	14	37	1.88
5459527--5459916	205	1.9	205	83	7	511	31	15	15	37	1.89
5462568--5462617	22	2.3	22	80	10	59	46	2	8	44	1.44
5462898--5462950	23	2.3	23	84	9	65	60	0	3	35	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5466176--5466208	13	2.5	13	100	0	66	15	6	33	45	1.70
5466312--5466402	40	2.3	38	81	5	92	38	18	20	21	1.93
5466794--5466869	7	10.9	7	74	5	55	22	1	31	44	1.61
5466794--5466883	14	6.4	14	71	5	56	23	1	30	45	1.60
5466895--5466954	28	2.1	28	81	6	68	18	1	30	50	1.57
5466914--5466960	14	3.4	14	81	0	58	17	0	34	48	1.47
5467669--5467798	43	3.0	43	82	6	165	30	31	18	19	1.96
5469461--5469524	33	1.9	33	100	0	128	43	21	9	25	1.82
5469545--5469576	16	2.0	16	93	0	55	15	25	31	28	1.96
5469648--5469770	40	3.1	40	74	11	112	23	17	18	40	1.91
5469808--5470080	126	2.2	124	83	3	325	34	17	18	29	1.95
5470183--5470223	20	2.0	20	95	0	73	24	43	2	29	1.67
5471021--5471081	17	3.3	17	75	20	68	13	14	22	49	1.78
5471012--5471073	22	3.0	22	73	22	80	16	12	25	45	1.83
5471016--5471101	39	2.2	39	83	4	102	16	15	20	47	1.82
5472165--5472273	9	12.0	9	80	8	114	44	20	0	33	1.58
5472160--5472279	56	2.1	56	90	3	188	45	18	0	35	1.56
5472174--5472280	56	1.9	56	96	0	196	45	18	0	35	1.50
5473519--5473615	23	4.4	21	72	16	65	54	4	4	37	1.39
5475097--5475373	56	5.0	56	90	4	418	45	18	1	35	1.57
5475097--5475355	109	2.4	108	90	3	401	45	18	0	35	1.56
5475108--5475373	9	29.0	9	71	14	161	45	18	1	34	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5475097--5475386	109	2.6	108	80	12	338	45	18	1	35	1.56
5481148--5481371	43	5.2	43	86	4	290	30	20	22	26	1.98
5484929--5484962	4	8.5	4	100	0	68	50	26	0	23	1.50
5486277--5486336	29	2.0	30	93	3	104	41	3	0	55	1.16
5489884--5490095	111	1.9	111	83	3	275	24	32	12	31	1.92
5492087--5492182	19	5.1	18	68	13	50	62	0	3	34	1.11
5492104--5492172	18	3.7	19	74	16	72	59	0	2	37	1.12
5492083--5492171	37	2.4	36	82	15	103	60	0	3	35	1.13
5492081--5492182	10	11.1	9	66	15	57	61	0	2	35	1.11
5492336--5492379	22	2.0	22	100	0	88	45	9	4	40	1.56

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