genome.fa.s17.2.7.7.80.10.50.1000.14.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  14  of  173  ( 20651 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)
3761312--3761374	26	2.3	27	83	5	74	34	1	1	61	1.15
3762388--3762416	9	3.2	9	100	0	58	68	0	0	31	0.89
3762944--3762981	9	4.2	9	93	0	67	28	10	13	47	1.76
3768143--3768222	35	2.3	34	81	8	99	46	0	5	48	1.24
3768164--3768224	24	2.5	23	80	15	61	45	0	4	49	1.23
3768549--3768617	35	2.0	35	85	5	95	46	0	5	47	1.26
3768565--3768625	24	2.5	23	80	15	61	45	0	4	49	1.23
3769855--3769942	39	2.2	40	79	2	97	36	5	20	37	1.76
3770149--3770248	45	2.2	45	87	0	137	21	20	20	39	1.93
3773089--3773117	14	2.1	14	100	0	58	34	31	0	34	1.58
3780386--3780428	16	2.6	16	77	3	50	72	4	11	11	1.27
3785051--3785093	22	2.0	22	90	0	68	11	20	25	41	1.86
3785199--3785290	42	2.2	43	86	2	123	22	22	29	25	1.99
3785260--3785398	43	3.2	43	86	4	183	20	19	29	30	1.97
3785284--3785424	43	3.3	41	76	9	113	24	22	26	26	2.00
3785392--3785531	43	3.3	43	80	4	140	27	30	18	22	1.97
3785422--3785555	43	3.1	44	83	3	139	32	29	17	20	1.96
3785904--3785996	21	4.4	21	78	5	98	7	44	13	34	1.73
3785972--3786015	21	2.1	21	86	0	61	2	40	18	38	1.63
3786007--3786133	66	1.9	66	85	6	177	16	25	18	39	1.91
3786026--3786156	66	2.0	66	84	3	174	16	24	18	41	1.90
3791078--3791159	41	2.0	42	83	9	107	34	23	12	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3791840--3791925	39	2.2	39	85	6	113	39	39	2	18	1.64
3792985--3793047	7	8.7	7	86	6	81	47	38	1	12	1.51
3792985--3793047	29	2.2	29	88	5	92	47	38	1	12	1.51
3792985--3793047	22	2.9	22	92	0	99	47	38	1	12	1.51
3793335--3793669	113	2.9	112	82	8	372	29	25	22	22	1.99
3793565--3793708	74	1.9	74	81	6	175	26	23	25	25	2.00
3808596--3808660	26	2.6	25	83	9	80	41	4	3	50	1.38
3808596--3808654	24	2.4	24	85	5	82	40	3	3	52	1.35
3811242--3811310	31	2.2	32	82	7	88	44	10	17	27	1.80
3815728--3815752	13	1.9	13	100	0	50	88	0	12	0	0.53
3816282--3816334	27	2.0	27	85	7	72	11	5	5	77	1.11
3820292--3820343	27	2.0	24	82	10	59	34	7	7	50	1.60
3829221--3829297	29	2.5	31	83	4	95	49	12	11	25	1.75
3833079--3833106	10	2.8	10	100	0	56	32	10	7	50	1.64
3835540--3835609	18	3.6	18	68	20	59	42	8	25	22	1.82
3840118--3840166	18	2.7	18	75	9	55	36	0	0	63	0.95
3841120--3841156	16	2.4	16	95	4	67	56	5	2	35	1.36
3841280--3841397	60	2.0	60	88	3	175	53	12	0	33	1.45
3841390--3841534	19	7.3	19	73	18	102	55	12	0	31	1.37
3841465--3841530	21	3.2	21	85	10	91	59	10	0	30	1.31
3841539--3841600	27	2.3	27	82	0	70	17	29	25	27	1.98
3841670--3841736	27	2.5	27	76	16	77	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3847353--3847418	31	2.2	31	86	2	89	45	4	6	43	1.49
3848579--3848603	13	1.9	13	100	0	50	72	0	0	28	0.86
3854404--3854437	17	2.1	16	88	5	50	55	0	8	35	1.31
3854870--3854894	11	2.3	11	100	0	50	44	28	8	20	1.79
3858998--3859022	10	2.5	10	100	0	50	60	20	8	12	1.57
3860762--3860826	32	2.0	32	96	0	121	26	6	20	47	1.73
3860918--3861036	40	3.0	38	82	4	130	38	19	21	20	1.93
3861073--3861229	41	3.8	42	83	4	169	21	19	26	33	1.97
3861073--3861229	83	1.9	83	83	7	203	21	19	26	33	1.97
3861853--3861887	15	2.4	15	90	4	54	17	0	42	40	1.49
3863078--3863378	82	3.7	81	73	7	221	28	15	20	34	1.94
3862523--3863857	448	3.0	449	92	2	2129	30	15	19	34	1.93
3863626--3863785	82	2.0	82	82	5	198	27	16	18	37	1.92
3864031--3864069	14	2.8	14	80	0	51	76	7	10	5	1.13
3864391--3864451	16	3.8	16	82	4	86	22	4	13	59	1.53
3864388--3864452	33	2.0	33	100	0	130	23	6	12	58	1.56
3864504--3864815	157	2.0	157	99	0	615	33	15	17	33	1.91
3865023--3865053	12	2.6	12	94	0	53	6	9	16	67	1.39
3866022--3866081	33	1.9	30	80	12	68	33	8	15	43	1.76
3866107--3866139	10	3.1	11	86	8	50	33	9	21	36	1.85
3866174--3866300	13	9.4	13	68	17	62	44	11	2	41	1.52
3866253--3866328	9	8.6	9	70	13	59	42	14	0	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3866283--3866372	18	4.6	18	73	24	83	44	12	0	43	1.41
3866642--3866858	9	25.8	9	70	18	146	46	20	1	31	1.59
3866661--3866853	25	7.9	25	73	13	125	47	19	1	31	1.56
3866642--3866858	41	5.2	41	72	13	142	46	20	1	31	1.59
3866789--3866853	31	2.0	33	88	8	98	50	18	0	30	1.47
3872258--3872427	66	2.6	66	89	1	243	41	18	27	12	1.87
3872398--3872489	21	4.4	21	78	5	69	36	16	41	5	1.71
3872825--3873046	43	5.1	43	85	6	261	27	17	29	25	1.97
3872798--3873046	87	2.9	87	81	7	258	28	16	28	26	1.97
3872838--3873117	43	6.3	43	81	8	210	25	19	27	27	1.99
3872814--3873090	130	2.1	130	79	4	299	28	18	27	25	1.98
3872798--3873090	86	3.4	84	77	11	268	27	17	27	26	1.98
3874103--3874228	28	4.5	28	88	0	180	31	12	25	30	1.93
3874954--3875435	23	20.6	23	70	9	312	26	15	15	41	1.87
3874939--3875437	70	7.1	70	85	4	632	26	15	15	42	1.87
3874939--3875484	140	3.9	140	85	4	715	26	15	16	41	1.87
3881880--3882005	28	4.5	28	85	2	164	30	12	24	31	1.92
3882717--3883198	23	20.6	23	71	9	339	26	16	16	41	1.88
3882702--3883217	70	7.3	70	86	5	693	26	15	16	41	1.88
3882702--3883215	140	3.7	140	89	3	773	26	15	16	41	1.88
3883069--3883116	25	1.9	25	82	0	60	27	14	18	39	1.90
3887150--3887267	42	2.8	42	80	6	123	30	26	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3887150--3887307	43	3.7	44	76	9	141	30	26	18	24	1.98
3888789--3888879	43	2.1	43	97	0	173	46	10	9	32	1.72
3889077--3889176	41	2.5	38	75	15	87	47	7	1	45	1.37
3889911--3889958	16	3.0	16	84	0	69	39	6	25	29	1.80
3893120--3893208	3	29.3	3	88	2	124	35	4	0	59	1.18
3898556--3899574	44	23.0	44	79	4	1046	29	24	14	31	1.95
3898556--3899574	133	7.7	131	80	5	1019	29	24	14	31	1.95
3898556--3899574	89	11.5	86	82	4	932	29	24	14	31	1.95
3901820--3901862	18	2.4	18	84	0	50	65	6	16	11	1.46
3903529--3903575	24	2.0	24	83	8	60	17	34	12	36	1.87
3908680--3908710	5	6.2	5	100	0	62	38	0	0	61	0.96
3915028--3915065	17	2.2	17	100	0	76	39	10	26	23	1.87
3915075--3915099	13	1.9	13	100	0	50	72	0	0	28	0.86
3920862--3921033	42	4.1	42	81	3	125	44	16	23	15	1.85
3920888--3920997	21	5.2	21	74	0	94	42	17	23	16	1.88
3924158--3924245	31	3.0	31	68	19	98	51	13	9	26	1.71
3924401--3924466	31	2.1	31	83	5	80	40	13	10	34	1.79
3925063--3925100	17	2.2	17	90	0	58	39	0	0	60	0.97
3928061--3928089	2	14.5	2	100	0	58	51	0	0	48	1.00
3932360--3932413	25	2.0	28	82	10	69	48	1	1	48	1.23
3936793--3936823	16	1.9	16	100	0	62	0	38	16	45	1.47
3943849--3943913	30	2.2	30	86	5	87	46	9	13	30	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3945309--3945338	3	10.0	3	100	0	60	66	0	0	33	0.92
3948126--3948187	22	2.7	22	90	5	88	48	1	1	48	1.21
3948161--3948217	16	3.6	16	90	0	87	47	3	3	45	1.37
3948271--3948327	28	2.1	27	86	3	78	40	3	7	49	1.47
3948267--3948424	83	2.0	82	86	12	229	39	4	7	48	1.52
3948267--3948376	40	2.8	40	73	18	133	37	4	8	50	1.53
3948471--3948517	22	2.1	22	84	7	60	57	4	2	36	1.30
3955873--3956738	49	17.6	48	64	10	300	34	21	19	23	1.97
3955868--3956838	98	9.8	98	84	2	1140	33	21	20	24	1.97
3955868--3956838	197	4.9	196	87	2	1169	33	21	20	24	1.97

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