genome.fa.s4.2.7.7.80.10.50.1000.175.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   254   255   

This is table  175  of  255  ( 30512 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)
57710482--57710559	40	2.0	39	82	5	95	26	23	19	30	1.98
57713572--57713606	16	2.2	16	90	10	54	74	2	5	17	1.14
57719054--57719112	17	3.6	17	70	21	63	33	20	11	33	1.89
57719060--57719124	31	2.1	31	100	0	130	35	21	9	33	1.85
57727235--57727293	29	2.0	29	96	0	109	23	3	15	57	1.53
57733878--57733959	34	2.4	34	83	6	94	69	0	28	2	1.01
57733867--57733954	6	15.5	6	74	15	71	68	0	28	3	1.06
57733869--57733959	31	3.1	28	80	12	92	69	0	27	3	1.04
57733878--57733948	11	6.8	10	77	15	56	69	0	29	1	0.98
57737591--57737668	34	2.3	34	80	4	86	43	16	6	33	1.74
57737591--57737671	17	4.8	17	76	3	65	43	17	6	33	1.74
57738671--57738746	31	2.5	31	85	4	93	46	7	3	42	1.51
57746174--57746231	30	1.9	30	85	0	80	20	13	6	58	1.58
57746479--57746643	12	14.1	12	69	18	100	32	2	1	63	1.18
57746514--57746590	32	2.2	36	80	17	85	36	1	0	62	1.04
57746479--57746702	23	8.6	25	70	20	106	34	2	1	60	1.21
57746480--57746649	46	3.7	45	77	15	145	32	2	1	63	1.17
57746597--57746635	20	2.0	20	89	0	60	28	2	2	66	1.18
57758458--57758500	18	2.4	18	77	14	52	46	6	9	37	1.63
57758970--57759234	28	9.5	28	94	0	417	26	13	27	32	1.93
57762016--57762796	90	8.7	90	87	1	1057	31	14	27	27	1.95
57764223--57764273	27	2.0	27	84	7	70	35	1	1	60	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57764218--57764275	29	2.2	26	82	14	73	31	1	1	65	1.13
57764306--57764376	23	2.9	25	78	14	78	30	0	2	66	1.06
57764306--57764456	30	5.1	29	71	25	77	32	2	1	62	1.20
57764307--57764379	12	6.0	12	75	13	60	30	0	2	67	1.05
57764340--57764409	20	3.5	21	79	14	69	34	2	0	62	1.10
57773273--57773342	6	11.7	6	80	11	81	15	1	2	80	0.91
57776631--57776753	43	2.9	43	83	0	156	21	14	17	45	1.85
57776649--57776824	43	4.1	43	76	5	140	21	14	19	45	1.85
57776649--57776824	86	2.0	87	80	3	194	21	14	19	45	1.85
57781456--57781513	30	1.9	30	82	0	71	31	10	27	31	1.90
57781852--57782115	46	5.6	46	71	18	154	27	18	29	24	1.98
57784150--57784337	40	4.7	40	91	3	308	25	27	22	24	2.00
57784117--57784337	119	1.9	119	87	5	331	25	27	21	25	2.00
57786999--57787859	436	2.0	436	92	0	1452	29	23	25	21	1.99
57789567--57789601	17	2.1	17	100	0	70	34	37	28	0	1.58
57803473--57803531	30	2.0	30	82	0	73	32	11	27	28	1.92
57803874--57804090	46	4.7	46	78	9	178	27	20	29	22	1.98
57807730--57807945	118	1.8	118	79	2	254	31	24	18	25	1.97
57810041--57810094	28	1.9	28	84	0	72	48	3	1	46	1.30
57810799--57810847	25	2.0	24	88	4	71	55	0	4	40	1.19
57812810--57812938	58	2.3	58	90	4	210	43	6	10	40	1.63
57835231--57835549	48	6.7	49	74	14	221	24	29	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57835232--57835549	46	6.7	46	74	11	220	24	29	18	26	1.98
57836258--57836284	13	2.1	13	100	0	54	62	14	7	14	1.51
57837385--57837415	5	6.2	5	100	0	62	61	0	0	38	0.96
57848967--57849069	50	2.1	50	90	0	161	31	2	4	61	1.32
57850049--57850088	20	2.0	20	100	0	80	30	30	0	40	1.57
57852755--57852794	14	2.9	14	84	0	53	32	7	17	42	1.77
57852763--57852829	35	1.9	35	87	3	100	31	10	13	44	1.77
57852778--57852817	20	2.0	20	85	0	53	27	12	12	47	1.77
57855631--57855658	14	2.0	14	100	0	56	35	21	14	28	1.92
57856102--57856154	26	2.1	25	85	3	70	66	1	0	32	1.03
57876022--57876210	29	6.5	28	77	3	126	35	11	26	25	1.90
57875996--57876210	58	3.7	58	77	4	200	36	11	26	26	1.90
57876136--57876210	30	2.6	29	85	4	96	38	13	28	20	1.90
57884006--57884044	18	2.2	18	85	0	51	38	10	7	43	1.67
57894197--57894304	26	4.2	26	91	0	180	35	24	8	32	1.85
57896613--57896682	27	2.6	27	95	2	113	31	28	12	27	1.93
57896613--57896710	28	3.5	28	90	2	135	31	28	13	26	1.94
57900601--57900672	36	2.0	36	94	0	126	45	12	9	31	1.74
57923474--57923511	15	2.5	15	95	0	67	28	7	23	39	1.83
57923804--57923847	18	2.4	18	85	7	63	70	6	0	22	1.11
57923816--57923884	10	7.3	9	72	18	52	69	2	0	27	1.02
57923817--57923877	18	3.3	18	77	9	52	68	3	0	27	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57923816--57923884	20	3.6	19	75	11	61	69	2	0	27	1.02
57923816--57923884	28	2.4	27	80	15	77	69	2	0	27	1.02
57926159--57926183	12	2.1	12	100	0	50	60	16	8	16	1.58
57926622--57926648	8	3.4	8	100	0	54	66	0	11	22	1.22
57927029--57927193	42	3.9	42	79	3	163	30	12	23	33	1.91
57928960--57929020	29	2.1	30	82	14	74	8	13	4	73	1.22
57936056--57936956	459	2.0	460	96	0	1660	25	12	23	37	1.91
57937241--57937328	42	2.1	42	85	4	115	23	25	32	18	1.97
57937385--57937441	29	2.0	29	96	0	105	26	21	36	15	1.93
57937389--57937451	29	2.2	29	88	0	90	25	22	36	15	1.94
57938680--57938822	75	1.9	72	80	9	164	40	17	6	34	1.77
57939139--57939182	20	2.2	20	80	11	56	38	0	0	61	0.96
57939140--57939179	19	2.1	19	86	9	55	37	0	0	62	0.95
57939550--57939579	15	2.0	15	93	0	51	66	3	0	30	1.07
57941243--57941289	23	2.0	23	84	12	60	17	2	10	70	1.26
57941502--57941526	13	1.9	13	100	0	50	32	0	0	68	0.90
57941925--57942150	109	2.1	113	81	10	272	38	7	7	45	1.63
57941658--57942042	201	1.9	205	82	8	482	37	7	5	49	1.55
57942561--57942592	11	2.8	11	95	4	55	59	0	0	40	0.97
57954596--57954648	23	2.3	22	81	9	61	24	5	9	60	1.49
57962318--57962393	38	2.0	38	100	0	152	31	13	23	31	1.93
57974273--57974436	57	2.9	57	88	2	240	28	19	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57981585--57981623	21	1.9	21	94	5	71	20	30	38	10	1.86
57982738--57983000	47	5.6	47	78	7	225	21	27	20	30	1.98
57985669--57986056	49	8.1	49	91	2	594	31	9	30	27	1.88
57985879--57985957	25	3.3	25	61	10	65	32	5	29	32	1.79
57985669--57986056	96	4.0	94	90	4	578	31	9	30	27	1.88
57986097--57986175	37	2.1	37	90	0	122	26	18	29	25	1.98
57987983--57988607	40	15.6	40	96	0	1106	23	22	28	24	1.99
57992234--57992621	49	8.1	49	92	2	612	31	9	30	28	1.88
57992234--57992621	96	4.0	94	91	4	596	31	9	30	28	1.88
57992662--57992740	37	2.1	37	90	0	122	26	18	29	25	1.98
57999094--57999124	15	2.1	15	100	0	62	48	12	0	38	1.42
58001436--58001476	18	2.1	21	86	13	61	53	7	9	29	1.60
58001426--58001476	18	2.6	19	81	15	59	54	11	7	25	1.63
58002915--58002954	19	2.1	19	95	0	71	62	10	7	20	1.50
58003433--58003500	23	2.8	24	74	14	61	61	13	1	23	1.40
58005645--58005736	46	2.0	46	95	0	166	31	18	16	33	1.93
58008916--58008954	2	20.0	2	89	5	62	46	0	51	2	1.14
58010924--58010970	21	2.2	22	88	3	69	21	36	19	23	1.95
58015460--58015525	31	2.1	31	100	0	132	46	0	28	24	1.52
58022897--58023024	63	2.0	63	90	1	204	48	12	14	24	1.79
58026399--58026443	22	2.0	22	83	8	56	40	4	0	55	1.20
58028203--58028247	21	2.1	21	95	0	81	53	15	4	26	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58030026--58030083	30	1.9	30	85	0	80	39	6	22	31	1.80
58031699--58031869	93	1.8	93	91	0	279	28	28	22	21	1.99
58031694--58031866	46	3.7	46	77	13	183	28	27	21	21	1.99
58032289--58032348	30	2.0	30	90	0	93	30	25	8	36	1.85
58041801--58042022	40	5.6	40	90	1	322	23	21	25	29	1.99
58049335--58049394	30	2.0	30	86	0	84	30	25	6	38	1.81
58050589--58051140	50	11.0	50	79	4	583	26	18	25	29	1.98
58050594--58051140	101	5.5	99	80	3	567	26	18	25	29	1.98
58050589--58051134	151	3.6	150	93	1	923	26	18	25	29	1.98
58055388--58055448	27	2.3	27	82	0	68	37	18	22	21	1.94

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   254   255