genome.fa.s14.2.7.7.80.10.50.1000.179.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   

This is table  179  of  213  ( 25468 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)
54046841--54046999	21	7.6	21	70	2	95	40	16	25	16	1.90
54046849--54046999	42	3.6	42	82	3	178	41	16	25	16	1.89
54048718--54048783	26	2.5	26	76	14	64	53	0	0	46	1.00
54048713--54048764	9	5.8	9	78	14	54	57	0	0	42	0.98
54050286--54050333	15	3.1	15	75	6	51	54	29	0	16	1.43
54051309--54051336	13	2.2	13	100	0	56	14	35	0	50	1.43
54057511--54057726	105	2.1	100	84	5	272	26	24	16	32	1.96
54059826--54059891	29	2.3	29	76	5	80	37	24	12	25	1.90
54062415--54062464	14	3.5	14	78	13	57	28	10	2	60	1.40
54062707--54062742	7	5.0	7	86	6	54	69	2	13	13	1.30
54062706--54062735	15	2.0	15	93	0	51	66	3	13	16	1.37
54066464--54066516	24	2.2	24	82	0	61	37	9	1	50	1.46
54070826--54070940	40	2.9	40	76	5	117	34	18	21	25	1.96
54070992--54071230	41	5.8	41	89	0	361	21	20	28	30	1.98
54071959--54072047	7	12.9	7	71	11	58	17	3	35	42	1.66
54072295--54072335	20	2.0	20	90	4	64	21	0	39	39	1.54
54077722--54077884	43	3.8	43	84	0	202	26	18	29	25	1.98
54077730--54077910	86	2.1	85	82	5	213	28	18	26	26	1.98
54085115--54085159	18	2.4	19	85	14	67	51	20	6	22	1.70
54086470--54086847	188	2.0	189	90	0	596	29	22	20	27	1.99
54088445--54088694	131	1.9	131	93	1	430	37	16	16	29	1.91
54089360--54089517	41	3.9	41	75	5	122	20	22	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54094770--54094931	87	1.9	87	90	5	265	39	18	29	12	1.88
54094919--54094965	21	2.2	21	80	0	58	34	14	40	10	1.81
54094919--54094973	21	2.6	20	77	5	56	34	12	41	10	1.78
54095296--54095844	43	12.8	43	86	4	709	27	20	27	24	1.99
54102622--54102743	64	1.9	62	83	6	156	42	4	2	50	1.34
54104598--54104697	30	3.4	30	77	12	125	41	10	24	25	1.85
54104602--54104732	60	2.2	60	83	6	160	38	12	25	23	1.89
54104576--54104763	30	6.3	30	70	11	100	39	12	22	24	1.89
54112125--54112320	30	6.5	30	78	6	150	36	12	26	25	1.91
54112091--54112321	90	2.6	90	78	8	224	35	12	26	25	1.92
54112151--54112350	90	2.2	90	78	7	217	36	12	25	26	1.91
54115101--54115157	22	2.6	22	86	8	73	52	8	17	21	1.71
54120787--54120819	17	1.9	17	100	0	66	39	6	6	48	1.53
54123321--54123367	15	3.1	15	93	0	76	27	21	12	38	1.90
54128339--54128372	5	7.2	5	87	12	54	38	0	0	61	0.96
54128346--54128371	13	2.0	13	100	0	52	30	0	0	69	0.89
54128341--54128377	18	2.1	18	94	0	65	29	2	0	67	1.04
54135975--54136109	18	8.0	17	68	19	77	38	0	2	57	1.19
54137023--54137435	205	2.0	205	98	0	799	30	21	20	27	1.98
54142247--54142337	45	2.0	44	82	2	110	29	5	28	36	1.80
54142502--54142536	18	2.0	17	88	5	52	54	0	0	45	0.99
54142389--54142705	157	2.0	157	94	0	553	44	3	4	47	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54142639--54142680	15	2.7	16	82	14	52	52	2	0	45	1.13
54142648--54142689	15	2.9	15	82	10	52	52	0	0	47	1.00
54149505--54149680	91	1.9	91	83	2	228	32	17	23	26	1.97
54159298--54159326	2	14.5	2	100	0	58	51	0	0	48	1.00
54160895--54160984	28	3.2	28	69	25	80	43	1	20	35	1.59
54163784--54163809	6	4.3	6	100	0	52	30	0	53	15	1.42
54169783--54169874	43	2.1	43	87	0	130	32	28	11	27	1.92
54177732--54177774	15	2.9	15	79	6	52	34	6	18	39	1.78
54178351--54178377	14	1.9	14	100	0	54	74	0	0	25	0.83
54178844--54178895	24	2.2	24	92	0	86	28	23	7	40	1.82
54182370--54182479	33	3.3	33	77	7	87	26	22	16	34	1.95
54186118--54186151	16	2.1	15	89	10	50	20	8	5	64	1.43
54191730--54191762	17	1.9	17	93	0	57	15	15	21	48	1.81
54194946--54195002	23	2.4	23	94	2	96	31	21	5	42	1.75
54195479--54195657	42	4.3	42	82	8	211	21	17	21	39	1.93
54195479--54195651	84	2.1	84	88	2	258	20	17	22	38	1.93
54196323--54196352	5	6.0	5	96	0	51	76	3	20	0	0.92
54197639--54197741	51	2.0	51	100	0	206	36	7	11	43	1.70
54200018--54200125	44	2.5	44	82	0	144	39	24	13	22	1.90
54200018--54200142	44	2.8	44	77	7	137	40	21	13	24	1.90
54201927--54201960	13	2.6	13	95	0	59	23	2	0	73	0.97
54205552--54205586	7	4.9	7	93	6	61	25	2	0	71	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54206882--54207205	46	7.0	46	92	4	537	28	20	9	41	1.83
54207286--54207349	31	2.1	31	90	0	101	32	12	7	46	1.70
54210201--54210245	22	2.0	22	95	0	81	40	8	20	31	1.83
54210209--54210252	22	2.0	22	86	0	61	43	6	22	27	1.78
54216724--54216944	40	5.5	40	84	0	244	18	29	18	33	1.95
54216724--54216942	80	2.7	80	84	0	285	18	29	18	33	1.95
54216800--54216904	20	5.2	20	66	4	77	19	32	18	30	1.95
54217978--54218077	48	2.1	48	92	3	166	35	4	20	41	1.71
54226587--54226630	22	2.0	22	91	4	72	11	15	27	45	1.81
54226701--54226859	42	3.8	42	89	2	239	33	23	20	23	1.97
54226915--54226948	15	2.3	15	89	0	50	58	23	2	14	1.50
54227217--54227256	12	3.3	12	89	0	62	2	35	17	45	1.62
54227241--54227309	21	3.3	21	87	0	93	1	42	20	36	1.61
54232828--54233101	9	30.2	9	76	7	250	30	2	16	50	1.60
54232927--54233096	82	2.1	84	77	11	86	29	3	15	51	1.61
54233123--54233192	20	3.5	21	77	11	67	31	0	12	55	1.38
54233113--54233211	29	3.3	28	81	14	101	31	1	12	55	1.43
54233123--54233228	32	3.4	31	79	12	110	33	0	12	53	1.44
54233461--54233493	17	1.9	17	100	0	66	51	6	6	36	1.51
54234369--54234769	219	1.8	219	85	6	562	49	17	15	17	1.81
54234728--54234815	44	2.0	46	90	4	144	44	28	5	21	1.75
54234925--54234970	23	2.0	23	83	8	58	60	17	4	17	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54238026--54238110	39	2.2	39	85	4	109	29	18	16	35	1.93
54238045--54238119	39	1.9	39	97	0	141	28	18	14	38	1.90
54237909--54238306	212	1.9	213	90	2	640	27	20	16	35	1.94
54239999--54240153	37	4.0	37	84	13	188	25	20	16	37	1.93
54240071--54240437	46	7.6	46	84	7	410	28	20	14	36	1.92
54240114--54240422	52	6.2	51	85	8	306	28	21	14	35	1.92
54240071--54240437	98	3.8	94	87	6	454	28	20	14	36	1.92
54240088--54240437	150	2.4	146	88	5	546	28	20	15	35	1.93
54246806--54246851	6	7.7	6	92	0	65	43	0	39	17	1.49
54246806--54246851	12	3.8	12	94	0	74	43	0	39	17	1.49
54246806--54246851	18	2.6	18	92	0	74	43	0	39	17	1.49
54255548--54255631	40	2.1	40	100	0	168	38	9	15	36	1.80
54261090--54261134	16	2.9	16	83	6	56	51	0	15	33	1.44
54261179--54261224	16	2.9	16	90	0	65	50	0	17	32	1.47
54261079--54261251	90	1.9	89	97	1	328	40	3	16	39	1.66
54261381--54261431	26	2.0	26	88	3	77	45	0	3	50	1.20
54261394--54261490	26	3.5	26	72	15	86	51	2	1	45	1.19
54261394--54261529	57	2.4	57	88	1	191	50	2	1	45	1.22
54261398--54261557	57	2.8	57	83	4	180	52	2	1	43	1.25
54270811--54270917	46	2.4	45	85	3	151	43	16	18	20	1.88
54270886--54271071	45	4.1	42	74	13	133	34	16	21	27	1.94
54270907--54271076	90	1.9	90	93	2	297	34	16	21	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54270905--54271078	45	3.9	45	86	1	251	33	16	21	28	1.95
54270999--54271166	45	3.7	45	80	4	133	40	18	19	21	1.92
54270907--54271097	90	2.1	90	88	5	280	36	16	20	26	1.94
54270907--54271123	90	2.4	90	84	6	217	37	17	20	25	1.93
54271086--54271201	46	2.6	45	85	1	151	48	16	18	17	1.82
54271087--54271206	45	2.6	46	85	1	152	47	16	18	17	1.83
54275852--54275893	18	2.3	19	87	4	59	35	2	7	54	1.41
54278231--54278384	43	3.6	42	86	6	177	31	29	17	21	1.96
54280257--54280293	9	4.1	9	92	0	65	29	10	13	45	1.77
54280336--54280374	18	2.1	19	90	4	62	35	20	12	30	1.90

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