genome.fa.s24.2.7.7.80.10.50.1000.17.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_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

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   

This is table  17  of  226  ( 27070 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)
6059879--6060033	18	8.3	19	74	19	114	0	31	0	68	0.90
6060184--6060237	27	2.0	27	100	0	108	33	0	7	59	1.25
6060190--6060262	27	2.7	27	82	2	74	41	1	9	47	1.44
6060975--6061025	13	3.9	13	77	10	59	60	1	0	37	1.08
6063303--6063351	21	2.3	23	86	10	68	30	0	2	67	1.02
6063484--6063535	16	3.1	16	77	5	59	57	1	1	38	1.21
6063636--6063683	21	2.2	21	85	7	60	70	2	0	27	0.98
6063920--6063968	13	3.8	13	86	0	62	36	2	6	55	1.37
6078967--6079020	24	2.2	24	96	0	99	35	3	7	53	1.47
6081057--6081103	24	2.0	24	91	0	76	36	21	23	19	1.95
6081060--6081109	24	2.1	24	84	0	64	40	20	24	16	1.91
6081151--6081213	26	2.4	27	86	5	85	33	22	26	17	1.96
6082438--6082504	21	3.2	21	73	0	71	46	14	20	17	1.84
6084371--6084423	27	2.0	26	81	3	61	41	0	3	54	1.18
6094045--6094105	25	2.5	25	82	12	74	24	6	4	63	1.38
6095105--6095172	18	3.9	17	70	19	50	42	0	2	54	1.15
6095314--6095355	12	3.4	12	90	3	66	45	0	0	54	0.99
6104728--6104820	39	2.5	37	80	7	98	27	29	22	20	1.98
6104996--6105040	22	2.0	24	82	8	58	37	22	0	40	1.54
6104990--6105040	23	2.2	23	82	10	59	37	21	0	41	1.54
6105751--6105807	28	2.0	28	100	0	114	40	10	7	42	1.66
6105941--6105974	17	2.1	17	88	5	52	2	17	5	73	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6106163--6106199	14	2.4	17	86	13	53	51	0	0	48	1.00
6111124--6111166	21	2.0	21	82	8	52	23	20	4	51	1.66
6112210--6112302	39	2.5	37	80	7	98	27	29	22	20	1.98
6112446--6112514	27	2.7	26	82	10	72	33	24	0	42	1.55
6112459--6112517	24	2.5	24	78	13	68	33	23	0	42	1.55
6113395--6113428	17	2.1	16	88	5	50	2	14	5	76	1.09
6113417--6113467	14	3.6	14	76	7	50	17	13	0	68	1.21
6113617--6113653	14	2.4	17	86	13	53	51	0	0	48	1.00
6113925--6113980	28	2.2	26	84	12	71	30	19	23	26	1.98
6115149--6115182	17	2.0	17	88	0	50	11	8	2	76	1.12
6116598--6116639	21	2.0	21	85	0	57	54	4	0	40	1.21
6145397--6145454	25	2.2	26	85	11	75	39	1	3	55	1.27
6145397--6145455	27	2.3	25	82	11	66	38	1	3	55	1.26
6146164--6146242	40	2.0	40	85	9	108	21	32	22	22	1.98
6146286--6146354	30	2.3	30	80	5	77	43	20	14	21	1.87
6152936--6153000	18	3.7	17	76	13	60	29	0	1	69	0.98
6160402--6160874	87	5.4	86	74	11	342	30	25	19	25	1.98
6160213--6160541	132	2.5	132	93	0	552	29	25	18	26	1.98
6160489--6160910	131	3.2	130	91	2	607	30	24	19	25	1.98
6160314--6160760	218	2.0	219	96	0	824	29	24	20	25	1.99
6160272--6160910	44	14.6	44	66	15	173	30	24	18	26	1.98
6160213--6160886	349	1.9	350	94	0	1179	29	25	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6162362--6162400	8	5.1	8	81	12	55	12	20	0	66	1.24
6162362--6162422	15	4.0	15	85	14	72	13	18	0	68	1.20
6162895--6163018	1	124.0	1	69	0	77	2	6	6	84	0.84
6162895--6163018	10	11.5	11	79	16	102	2	6	6	84	0.84
6162897--6163018	23	5.8	21	79	12	99	2	6	6	84	0.85
6166109--6166331	40	5.6	39	86	5	272	24	21	27	25	1.99
6166109--6166364	79	3.3	78	83	7	243	25	21	27	25	1.99
6174056--6174279	40	5.7	40	86	6	296	24	22	27	25	2.00
6174056--6174279	78	2.8	80	84	8	296	24	22	27	25	2.00
6178426--6178484	3	19.7	3	73	13	50	67	1	1	28	1.10
6178439--6178478	17	2.4	17	87	8	55	67	2	0	30	1.04
6178426--6178485	30	2.1	27	84	12	75	68	1	1	28	1.09
6178450--6178484	17	2.1	16	89	5	52	71	2	0	25	1.00
6182099--6182141	20	2.2	20	100	0	86	62	13	9	13	1.53
6183851--6183906	27	2.1	27	86	0	76	28	17	30	23	1.97
6199716--6199756	19	2.1	20	90	4	66	36	2	0	60	1.10
6204873--6204903	3	10.3	3	100	0	62	32	0	0	67	0.91
6205004--6205084	42	2.0	42	87	2	119	46	16	6	30	1.71
6206863--6206971	37	3.0	37	93	2	177	24	22	16	36	1.94
6206935--6207255	52	6.6	46	91	4	399	28	22	14	34	1.93
6206978--6207249	52	5.3	52	89	6	412	27	22	13	35	1.93
6206935--6207249	104	3.1	98	87	6	468	28	22	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6208472--6208735	45	5.9	45	92	0	411	25	19	15	39	1.91
6208849--6208880	16	2.0	16	100	0	64	50	25	12	12	1.75
6211592--6211640	19	2.6	18	84	9	62	16	6	4	73	1.19
6212403--6212665	45	5.9	45	92	0	411	25	19	15	39	1.91
6212403--6212665	134	2.0	135	90	0	420	25	19	15	39	1.91
6216313--6216576	45	5.9	45	92	0	411	25	19	15	39	1.91
6216688--6216719	16	2.0	16	93	0	55	53	25	9	12	1.68
6218471--6218517	19	2.3	20	85	7	60	31	4	2	61	1.27
6223667--6223747	42	2.0	42	87	2	119	48	14	7	29	1.71
6224943--6224983	19	2.1	20	86	4	57	34	4	0	60	1.18
6227944--6228107	82	2.0	82	92	2	276	40	12	9	37	1.74
6231493--6231533	21	2.0	21	90	0	64	29	21	29	19	1.98
6235073--6235099	7	3.9	7	100	0	54	44	0	11	44	1.39
6237309--6237394	33	2.5	34	81	9	102	51	9	12	26	1.70
6237340--6237462	18	6.9	18	80	14	139	45	9	11	33	1.73
6237497--6237618	54	2.3	54	76	2	138	45	9	9	35	1.71
6238409--6238433	7	3.6	7	100	0	50	0	12	0	88	0.53
6238411--6238451	20	2.1	20	86	13	59	0	17	0	82	0.66
6238411--6238446	18	1.9	19	88	5	56	0	16	0	83	0.65
6238576--6238633	24	2.5	23	80	5	71	1	12	10	75	1.11
6238583--6238640	25	2.4	25	88	2	91	1	10	13	74	1.15
6238859--6238909	23	2.2	23	82	3	57	3	13	15	66	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6240162--6240186	12	2.1	12	100	0	50	24	36	24	16	1.94
6240656--6240727	30	2.4	30	100	0	144	26	26	23	23	2.00
6240672--6240730	18	3.6	18	70	25	67	27	23	22	27	1.99
6246153--6246210	21	2.7	21	86	5	71	51	8	25	13	1.70
6250508--6250571	33	1.9	33	87	0	92	15	9	46	28	1.77
6254901--6254930	14	2.1	14	100	0	60	73	6	6	13	1.24
6277896--6277934	14	2.8	14	80	0	51	25	0	2	71	0.98
6279274--6279328	22	2.5	23	82	5	60	69	3	3	23	1.21
6279451--6279899	224	2.0	223	94	1	792	43	12	12	31	1.79
6287607--6287636	14	2.1	15	93	6	53	70	0	0	30	0.88
6289813--6289866	22	2.3	24	81	15	60	1	22	7	68	1.24
6290054--6290122	5	14.4	5	77	19	76	59	0	0	40	0.97
6290057--6290122	19	3.3	21	81	16	86	59	0	0	40	0.98
6294898--6294946	18	2.7	18	78	12	55	65	2	4	28	1.22
6294914--6295009	9	10.4	9	73	10	70	63	2	3	31	1.21
6294829--6294965	72	1.9	72	81	14	167	62	3	2	32	1.25
6294913--6295080	21	8.8	19	67	19	68	60	2	4	31	1.32
6294938--6294964	10	2.7	10	100	0	54	55	0	0	44	0.99
6294914--6295056	56	2.6	54	79	12	157	60	2	4	31	1.32
6295275--6295330	19	3.0	20	79	10	64	39	5	1	53	1.34
6295358--6295564	89	2.4	85	83	9	242	30	8	21	39	1.83
6296293--6296322	14	2.1	15	93	6	53	66	3	0	30	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6296869--6296950	11	7.9	11	70	20	61	41	2	0	56	1.13
6296863--6296947	40	2.2	40	91	4	138	40	2	0	57	1.11
6296918--6296958	21	2.0	21	90	0	64	41	2	0	56	1.13
6296848--6296970	32	4.0	29	70	23	83	43	1	0	53	1.16
6300871--6300910	20	2.0	21	85	14	57	50	0	5	45	1.23
6308684--6308735	23	2.5	19	82	17	59	53	3	3	38	1.37
6308777--6308860	3	27.3	3	73	13	64	60	3	4	30	1.34
6316203--6316231	12	2.3	13	94	5	51	20	0	20	58	1.39
6321523--6321559	9	4.1	9	92	0	65	45	13	10	29	1.77
6321595--6321637	21	2.0	21	82	8	52	20	32	0	46	1.51

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