genome.fa.s14.2.7.7.80.10.50.1000.16.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  16  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)
4443661--4443724	26	2.5	26	94	2	112	50	7	20	21	1.73
4444765--4444921	69	2.3	68	88	4	226	28	5	14	51	1.65
4447808--4448013	90	2.3	90	89	2	306	45	3	4	47	1.39
4447928--4447985	28	2.2	26	87	6	80	43	0	3	53	1.17
4448101--4448285	38	4.7	39	68	16	98	43	1	7	48	1.40
4448153--4448204	15	3.6	15	80	12	56	44	0	1	53	1.11
4448018--4448324	119	2.6	121	93	2	514	42	2	4	50	1.36
4448281--4448322	15	2.7	16	82	14	52	45	0	2	52	1.13
4448272--4448313	15	2.9	15	82	10	52	47	0	0	52	1.00
4448539--4448608	16	4.4	16	94	0	113	25	35	2	35	1.71
4448896--4450004	152	7.4	151	78	10	1033	29	10	7	53	1.60
4448907--4450004	305	3.6	302	82	8	1347	29	9	7	53	1.60
4450195--4450618	125	3.4	125	88	2	627	32	16	21	29	1.96
4453600--4453630	9	3.4	9	90	0	53	25	12	22	38	1.90
4453684--4453720	9	4.1	9	92	0	65	45	13	10	29	1.77
4454295--4454563	114	2.4	114	92	1	450	40	4	10	44	1.59
4454314--4454478	37	4.4	38	65	17	92	40	6	8	44	1.61
4456751--4456804	22	2.5	22	77	19	60	42	1	31	24	1.65
4457466--4457545	42	1.9	42	87	10	119	53	5	1	40	1.31
4459636--4459735	50	2.0	50	94	0	173	39	19	13	29	1.89
4461331--4461391	30	2.1	28	87	6	86	27	1	11	59	1.42
4464197--4464248	18	3.1	17	77	5	52	48	5	1	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4464412--4464452	13	3.2	13	89	6	66	63	0	2	34	1.08
4469889--4470009	63	1.9	63	89	0	188	23	24	29	22	1.99
4475348--4475372	7	3.6	7	100	0	50	28	0	12	60	1.32
4476462--4476584	25	5.1	25	76	13	141	42	0	14	43	1.45
4476587--4476623	9	4.2	9	96	3	67	29	0	10	59	1.31
4476650--4476953	23	13.3	23	80	12	317	51	21	3	23	1.62
4476660--4476953	69	4.3	68	85	10	386	51	22	2	23	1.61
4476827--4476959	39	3.2	39	82	7	158	50	23	3	23	1.63
4476896--4476930	16	2.2	16	94	0	61	48	25	0	25	1.51
4476911--4476969	23	2.6	23	86	0	82	44	30	1	23	1.64
4476707--4476969	62	3.9	62	78	17	256	50	23	2	22	1.62
4476659--4476953	46	6.5	46	80	8	361	51	22	3	23	1.62
4478210--4478549	124	2.7	124	90	2	538	32	20	17	29	1.96
4479217--4479259	18	2.6	16	85	7	50	39	2	4	53	1.34
4491266--4491299	17	1.9	18	88	5	52	29	8	2	58	1.43
4491265--4491331	18	3.6	18	76	9	55	37	5	1	55	1.34
4491284--4491338	9	5.8	9	77	12	56	40	3	0	56	1.17
4491286--4491338	20	2.8	20	81	13	58	39	3	0	56	1.17
4491295--4491343	20	2.4	21	83	12	59	40	4	0	55	1.19
4491494--4491575	9	8.8	9	75	11	60	30	1	6	62	1.27
4494975--4495011	15	2.4	16	82	13	51	24	0	5	70	1.08
4495635--4495687	20	2.5	22	78	9	65	41	3	1	52	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4499304--4499337	8	4.1	8	88	7	50	17	0	0	82	0.67
4499304--4499337	17	2.1	17	88	5	52	17	0	0	82	0.67
4499334--4499461	11	12.4	11	66	20	71	38	2	0	58	1.16
4499317--4499441	40	3.2	40	89	1	189	36	2	0	60	1.16
4499422--4499462	21	2.0	21	95	0	73	31	0	0	68	0.90
4499422--4499469	21	2.2	21	88	3	69	29	0	4	66	1.10
4502758--4502788	12	2.7	12	95	5	55	19	0	0	80	0.71
4503613--4503650	19	2.1	19	85	14	53	18	5	0	76	0.97
4517047--4517093	21	2.2	21	80	0	58	2	44	19	34	1.62
4520251--4520501	9	28.8	9	71	12	175	31	3	19	45	1.66
4520240--4520344	25	4.2	25	77	11	115	33	2	18	45	1.64
4520750--4520801	13	4.0	13	92	0	77	42	1	9	46	1.47
4520647--4520782	53	2.6	53	84	0	191	44	5	10	38	1.63
4532479--4532519	17	2.4	17	87	0	55	14	17	14	53	1.73
4532523--4532608	7	12.3	7	82	4	111	3	12	12	70	1.28
4533003--4533535	192	2.8	193	88	8	783	39	6	4	49	1.51
4533003--4533567	290	1.9	289	91	6	921	39	6	4	48	1.51
4533625--4533776	48	3.1	48	75	20	188	50	1	7	40	1.41
4533560--4533859	98	3.1	100	95	3	540	50	2	7	40	1.42
4534258--4534330	7	10.3	7	79	2	83	69	10	13	5	1.33
4534258--4534332	21	3.5	21	81	1	96	69	10	13	6	1.36
4534334--4534377	18	2.4	19	84	3	54	56	13	15	13	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4535639--4536050	198	2.1	198	89	0	637	33	19	16	29	1.95
4536516--4536564	19	2.6	19	81	12	66	14	4	2	79	0.97
4536524--4536564	18	2.3	18	91	4	66	12	4	0	82	0.81
4536600--4536626	14	1.9	14	100	0	54	44	7	0	48	1.31
4536761--4536785	13	1.9	13	100	0	50	32	56	0	12	1.36
4536761--4536789	7	4.3	7	91	8	51	34	51	0	13	1.42
4536697--4536873	95	1.8	97	81	4	225	40	27	1	29	1.66
4536852--4536895	7	6.3	7	94	0	79	27	43	0	29	1.55
4537019--4537057	12	3.1	12	89	10	60	33	51	0	15	1.44
4537030--4537069	21	1.9	21	94	0	71	35	47	0	17	1.48
4536996--4537058	14	4.7	13	76	11	65	33	47	0	19	1.49
4537100--4537133	15	2.3	15	90	5	52	35	29	0	35	1.58
4537467--4537683	113	1.9	112	80	9	253	29	23	15	31	1.95
4537619--4537758	74	1.9	75	86	4	203	30	22	17	30	1.96
4537491--4537893	187	2.1	188	91	1	657	30	22	16	31	1.95
4537675--4538270	114	5.2	111	72	10	434	29	21	16	33	1.95
4537693--4538270	113	5.1	110	73	11	477	29	21	16	32	1.95
4537675--4538272	227	2.6	223	87	4	840	29	21	16	33	1.95
4539263--4539328	20	3.4	19	72	8	62	19	16	9	54	1.68
4539283--4539339	19	2.9	19	71	5	60	19	21	7	52	1.69
4539258--4539376	39	3.1	39	95	2	206	19	20	7	52	1.69
4539321--4539383	22	3.2	22	62	29	59	14	19	9	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4539267--4539383	37	3.1	37	95	2	198	17	19	8	54	1.68
4545692--4545721	12	2.5	12	94	0	51	46	0	6	46	1.29
4545799--4545857	18	3.2	19	79	13	70	61	6	0	32	1.22
4545802--4545844	17	2.6	17	85	10	54	62	4	0	32	1.15
4546062--4546146	3	28.3	3	73	17	63	65	1	3	29	1.16
4546062--4546146	11	7.4	11	71	19	66	65	1	3	29	1.16
4546062--4546143	24	3.4	23	74	14	76	65	1	3	29	1.17
4546062--4546146	35	2.3	36	78	8	91	65	1	3	29	1.16
4546472--4546544	23	3.2	23	76	16	71	60	28	1	9	1.37
4546470--4546535	21	3.0	21	82	8	62	57	30	1	10	1.42
4547003--4547154	40	3.8	40	81	3	196	26	20	21	30	1.98
4546987--4547155	82	2.0	83	89	1	259	26	18	21	33	1.96
4547315--4547504	46	4.2	45	67	11	127	29	24	20	25	1.99
4547317--4547620	134	2.3	134	92	1	502	28	22	21	27	1.99
4547586--4548133	44	12.4	45	73	6	415	30	25	17	26	1.97
4547586--4548138	132	4.2	132	93	0	926	30	25	16	26	1.97
4560349--4560388	15	2.6	16	88	8	64	60	7	0	32	1.25
4560596--4560677	3	27.3	3	72	18	57	65	1	3	29	1.17
4560596--4560677	11	7.4	11	74	17	71	65	1	3	29	1.17
4560612--4560678	27	2.5	28	76	13	70	67	1	4	26	1.19
4560596--4560674	24	3.4	24	70	21	69	65	1	3	29	1.17
4560997--4561068	23	3.2	23	75	16	69	59	29	1	9	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4560995--4561059	20	3.0	21	82	6	60	56	30	1	10	1.42
4561142--4561205	23	2.8	23	88	6	87	12	7	56	23	1.62
4574580--4574604	6	4.2	6	100	0	50	84	0	0	16	0.63
4574765--4574890	30	4.2	30	66	17	84	34	2	0	61	1.14
4574765--4574833	10	6.9	10	73	6	59	33	2	1	62	1.19
4574764--4574897	10	13.7	9	66	15	52	34	2	0	61	1.16
4580869--4580929	13	4.3	13	72	25	52	34	1	3	60	1.23
4587767--4587871	52	2.0	54	83	9	135	58	11	6	23	1.57
4590032--4590092	25	2.5	24	73	7	59	45	4	1	47	1.34
4590082--4590109	11	2.5	11	100	0	56	35	0	0	64	0.94

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