genome.fa.s18.2.7.7.80.10.50.1000.12.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  12  of  208  ( 24943 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)
4832404--4832435	13	2.5	13	94	0	55	56	12	0	31	1.37
4832647--4832704	30	1.9	30	89	0	89	31	24	3	41	1.71
4839648--4839896	99	2.4	104	86	7	348	20	29	23	26	1.99
4839649--4839896	50	4.8	50	84	5	293	20	29	23	26	1.99
4839991--4840021	13	2.5	13	94	5	55	58	9	0	32	1.31
4840233--4840290	30	1.9	30	89	0	89	31	24	3	41	1.71
4852398--4852430	15	2.3	15	89	5	50	48	3	0	48	1.17
4854557--4854583	12	2.2	12	100	0	54	7	37	7	48	1.59
4865173--4865211	2	19.5	2	100	0	78	51	0	48	0	1.00
4866327--4866359	11	2.8	12	86	9	50	48	0	0	51	1.00
4866735--4866760	13	2.0	13	100	0	52	38	15	30	15	1.88
4866823--4866848	13	2.0	13	100	0	52	15	30	15	38	1.88
4867790--4867869	39	2.1	39	100	0	160	38	22	8	30	1.84
4873651--4873710	30	2.0	30	100	0	120	26	10	16	46	1.78
4878536--4878582	9	5.2	9	81	0	58	2	44	2	51	1.25
4878535--4878585	24	2.1	24	88	0	75	1	47	1	49	1.24
4878588--4878630	12	3.6	12	87	0	59	18	37	11	32	1.87
4878602--4878636	15	2.3	15	95	0	61	14	40	11	34	1.82
4878710--4878749	21	1.9	21	85	10	55	15	32	7	45	1.74
4883826--4884011	93	2.0	93	97	0	354	38	19	10	31	1.85
4892464--4892718	46	5.3	46	79	13	253	35	13	21	29	1.92
4892412--4892701	52	5.8	51	82	9	384	34	14	22	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4892398--4892719	98	3.3	98	96	0	581	34	13	22	28	1.93
4892682--4892864	37	5.0	37	94	1	316	37	16	21	24	1.93
4894118--4894285	58	3.0	58	87	10	237	22	13	30	33	1.92
4894137--4894227	28	3.2	28	66	22	80	25	15	31	27	1.95
4894178--4894318	49	2.9	49	93	0	228	24	13	29	32	1.93
4897514--4897768	46	5.3	46	79	13	253	35	13	21	29	1.92
4897462--4897751	52	5.8	51	82	9	384	34	14	22	29	1.93
4897448--4897769	98	3.3	98	96	0	581	34	13	22	28	1.93
4897732--4897914	37	5.0	37	94	1	316	37	16	21	24	1.93
4915574--4915606	3	11.0	3	100	0	66	66	0	0	33	0.92
4919999--4920036	17	2.2	17	100	0	76	21	5	15	57	1.57
4921646--4921690	16	2.8	16	86	3	54	28	2	2	66	1.15
4923502--4923558	17	3.4	17	82	4	62	49	1	5	43	1.35
4923903--4923955	27	2.0	27	85	7	72	18	7	13	60	1.56
4925616--4925655	20	2.1	19	90	4	62	25	7	20	47	1.75
4928531--4928556	3	8.7	3	100	0	52	30	0	0	69	0.89
4931378--4931429	24	2.2	24	89	0	77	50	9	3	36	1.54
4935793--4935845	24	2.2	24	89	0	79	49	9	3	37	1.53
4937678--4937704	11	2.5	11	100	0	54	40	0	0	59	0.98
4937653--4937700	19	2.5	20	70	10	55	45	0	2	52	1.12
4941001--4941059	31	1.9	31	89	0	91	25	20	1	52	1.56
4941149--4941214	22	3.0	22	81	0	87	36	19	27	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4941195--4941266	26	2.8	25	85	4	99	34	22	26	16	1.95
4941416--4941441	13	2.0	13	100	0	52	46	7	0	46	1.31
4942232--4942272	8	5.0	8	82	5	55	58	2	0	39	1.11
4942228--4942262	16	2.1	17	89	5	54	57	2	0	40	1.14
4943718--4943873	41	3.8	41	90	4	219	22	19	30	27	1.98
4947224--4947279	23	2.5	22	77	8	58	39	1	1	57	1.20
4947361--4947451	43	2.1	43	85	4	130	32	16	20	29	1.95
4948732--4948775	22	2.0	22	95	0	79	27	11	9	52	1.67
4951117--4951146	6	5.0	6	100	0	60	0	33	0	66	0.92
4952958--4952990	3	11.0	3	100	0	66	33	0	0	66	0.92
4969156--4969200	2	23.0	2	95	4	83	0	48	0	51	1.00
4978420--4978468	23	2.0	24	85	14	66	40	2	8	48	1.44
4995874--4996066	96	2.0	96	91	0	314	33	16	24	26	1.96
5013352--5013377	3	8.7	3	100	0	52	34	0	30	34	1.58
5015230--5015265	8	4.3	9	83	16	51	47	22	8	22	1.77
5018889--5018932	12	3.7	12	84	0	52	20	9	68	2	1.28
5018895--5018933	15	2.6	15	83	0	51	20	10	66	2	1.33
5022446--5022485	22	1.9	21	85	10	55	25	15	37	22	1.93
5025009--5025050	18	2.5	17	81	11	50	59	7	30	2	1.37
5025047--5025077	6	5.2	6	92	0	53	80	0	19	0	0.71
5025045--5025086	12	3.5	12	87	6	59	76	0	23	0	0.79
5025744--5025790	24	2.0	24	84	16	62	31	0	17	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5025947--5026040	41	2.4	40	80	7	104	23	18	27	30	1.97
5026752--5026792	21	1.9	22	90	5	66	46	17	0	36	1.48
5029110--5029136	13	2.1	13	100	0	54	37	0	14	48	1.45
5031075--5031144	31	2.3	31	100	0	140	5	30	11	52	1.60
5033939--5033974	17	2.1	17	100	0	72	16	11	5	66	1.40
5048507--5048548	18	2.5	17	81	11	50	38	0	2	59	1.10
5049590--5049662	38	1.9	38	94	0	128	53	21	2	21	1.59
5049795--5049852	17	3.4	17	68	17	57	31	3	13	51	1.58
5049790--5049854	34	1.9	34	100	0	130	32	4	15	47	1.66
5063980--5064012	15	2.1	16	94	5	59	18	18	0	63	1.31
5069622--5069718	45	2.2	45	88	5	151	25	5	9	59	1.49
5070346--5070380	18	1.9	18	88	0	52	45	0	2	51	1.16
5070658--5070739	36	2.3	36	81	8	87	63	4	3	28	1.32
5081981--5082013	5	6.8	5	93	6	59	39	21	21	18	1.93
5089521--5089719	59	3.3	59	71	16	203	39	1	3	55	1.24
5089641--5089775	18	8.0	17	72	19	104	40	0	1	57	1.13
5089499--5089741	120	2.0	120	95	0	432	41	2	4	52	1.32
5089668--5089725	13	4.3	13	79	16	64	43	0	0	56	0.99
5089506--5089691	61	3.1	61	68	17	179	39	2	4	54	1.32
5089656--5089714	26	2.3	25	85	8	82	38	0	1	59	1.08
5089695--5089724	15	2.0	15	93	0	51	43	0	0	56	0.99
5089577--5089760	41	4.6	40	68	23	118	40	1	3	54	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5090140--5090237	50	2.0	50	100	0	196	39	22	16	21	1.92
5090272--5090303	15	2.1	15	100	0	64	21	21	18	37	1.94
5091239--5091291	21	2.5	21	87	0	79	32	35	9	22	1.86
5091281--5091410	68	1.9	68	95	0	233	27	38	12	21	1.89
5093861--5093933	7	10.1	7	94	5	128	43	41	0	15	1.46
5093861--5093933	22	3.4	22	96	3	139	43	41	0	15	1.46
5122915--5122952	17	2.2	18	85	4	51	21	2	18	57	1.52
5125487--5125522	17	2.1	17	89	0	54	16	0	80	2	0.83
5125496--5125525	6	5.2	6	92	8	53	16	0	83	0	0.65
5125421--5125600	86	2.1	87	88	5	267	28	5	51	15	1.64
5130350--5130401	26	2.0	26	88	0	77	25	23	15	36	1.93
5137868--5137917	24	2.1	24	92	0	82	50	22	12	16	1.77
5148023--5148062	20	2.1	19	85	4	53	60	7	5	27	1.45
5150106--5150135	14	2.1	14	93	6	51	20	0	0	80	0.72
5152644--5152691	23	2.0	24	84	11	64	45	4	0	50	1.21
5155463--5155531	24	3.0	22	70	17	59	62	4	8	24	1.43
5160646--5160680	18	1.9	18	88	0	52	0	25	5	68	1.11
5166347--5166649	151	2.0	151	99	0	597	34	15	13	36	1.87
5168783--5168836	16	3.4	16	86	0	81	31	1	35	31	1.69
5168815--5168905	45	2.0	44	85	2	119	30	5	28	35	1.80
5169048--5169085	16	2.4	17	82	13	53	52	2	0	44	1.14
5169031--5169317	22	14.0	21	65	21	92	53	3	1	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5169131--5169171	13	3.2	12	80	12	55	58	0	0	41	0.98
5169159--5169194	18	2.0	18	100	0	72	66	0	0	33	0.92
5169282--5169316	18	2.0	17	94	5	61	57	0	0	42	0.99
5169086--5169377	59	4.8	60	69	15	192	52	4	1	41	1.33
5169086--5169393	121	2.6	120	94	1	528	52	4	1	40	1.32
5170877--5170906	13	2.3	13	94	0	51	30	13	6	50	1.67
5184808--5184862	17	3.0	18	78	10	58	27	1	5	65	1.25
5184808--5184860	18	3.0	17	88	5	70	28	1	5	64	1.27
5186468--5186500	16	2.1	16	88	5	50	48	0	3	48	1.17
5221462--5221499	12	3.0	13	88	11	53	0	39	2	57	1.12

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