genome.fa.s19.2.7.7.80.10.50.1000.14.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   227   228   229   230   

This is table  14  of  230  ( 27491 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)
3819826--3819966	39	3.6	39	79	9	153	26	17	23	32	1.96
3820636--3820682	22	2.1	22	92	0	76	25	19	29	25	1.98
3822886--3823023	38	3.0	49	74	24	163	37	18	11	31	1.87
3822951--3823006	18	2.9	21	68	29	59	41	17	10	30	1.84
3822936--3822995	18	3.2	18	70	25	61	45	18	10	26	1.81
3827341--3827371	6	5.2	6	100	0	62	16	32	0	51	1.44
3848236--3848272	18	2.1	17	90	5	56	37	0	0	62	0.96
3848235--3848277	15	2.7	16	83	16	54	34	0	0	65	0.93
3852390--3852416	11	2.5	11	100	0	54	55	7	7	29	1.55
3852602--3852663	26	2.3	27	78	13	67	66	0	8	25	1.19
3853909--3853966	23	2.6	21	86	8	71	15	6	39	37	1.74
3854504--3855111	72	8.4	73	88	6	861	34	18	16	30	1.93
3854504--3855111	210	2.8	217	91	5	932	34	18	16	30	1.93
3883309--3883351	21	1.9	21	86	13	59	46	4	6	41	1.51
3884545--3884779	115	2.0	116	95	0	418	34	17	11	35	1.87
3894031--3894086	20	2.9	19	84	7	69	71	3	3	21	1.17
3894036--3894091	6	9.0	6	74	14	51	75	3	1	19	1.05
3894036--3894091	11	4.5	12	74	14	51	75	3	1	19	1.05
3897501--3897525	11	2.3	11	100	0	50	56	0	8	36	1.29
3901102--3901443	173	2.0	173	89	4	521	29	14	22	33	1.94
3904461--3904495	17	1.9	19	88	11	56	25	2	5	65	1.28
3911216--3911268	28	2.0	26	82	14	63	47	1	5	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925403--3925436	5	6.6	5	86	6	50	35	2	0	61	1.11
3925403--3925436	16	2.2	16	89	5	52	35	2	0	61	1.11
3930280--3930356	38	2.0	38	100	0	154	36	23	2	37	1.69
3932074--3932098	6	4.2	6	100	0	50	16	0	0	84	0.63
3933363--3933399	13	2.8	14	84	12	51	54	0	0	45	1.00
3936295--3936371	26	2.9	27	69	13	77	57	0	5	37	1.21
3936295--3936369	19	4.1	19	68	22	61	57	0	5	37	1.22
3936295--3936373	28	2.9	28	70	12	83	56	0	6	36	1.25
3938606--3938681	31	2.5	31	73	4	82	26	17	11	44	1.83
3948773--3948971	89	2.3	85	81	8	204	28	24	15	32	1.95
3950632--3950675	22	2.0	22	82	8	54	54	2	4	38	1.33
3953125--3953222	27	3.7	27	72	13	87	30	2	5	62	1.28
3953920--3953984	29	2.2	29	94	0	112	33	15	16	33	1.91
3953920--3953998	29	2.7	29	88	0	95	32	13	16	36	1.88
3958768--3958814	3	15.7	3	100	0	94	34	0	31	34	1.58
3975364--3975570	90	2.3	89	85	4	274	35	21	11	31	1.89
3975721--3975769	20	2.5	20	83	3	64	65	2	6	26	1.27
3975968--3976032	19	3.3	19	80	8	76	35	4	0	60	1.18
3976241--3976285	21	2.1	21	83	0	54	28	0	20	51	1.48
3976198--3976446	90	2.8	87	80	6	279	33	8	19	38	1.82
3986521--3986555	17	2.0	17	88	5	52	54	8	2	34	1.46
3989445--3989493	18	2.7	18	84	12	57	55	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3989445--3989493	19	2.7	19	87	12	68	55	0	2	42	1.11
3989776--3989837	26	2.3	27	88	8	90	40	8	0	51	1.31
3990217--3990280	19	3.4	19	78	4	85	35	9	1	53	1.43
3990509--3990567	19	3.2	19	82	4	84	49	0	13	37	1.43
3994485--3994620	42	3.2	43	86	7	188	30	22	20	27	1.98
3995024--3995063	12	3.3	12	85	0	53	5	37	17	40	1.72
3995048--3995116	21	3.3	21	85	0	93	1	42	21	34	1.62
4000672--4000732	18	3.4	18	83	0	77	39	1	19	39	1.62
4000672--4000763	27	3.4	27	87	3	78	40	2	16	41	1.60
4000682--4001498	36	22.7	36	78	5	449	36	3	11	47	1.58
4000689--4001496	27	27.6	27	75	19	573	36	3	11	47	1.58
4000689--4001496	90	9.1	90	87	5	897	36	3	11	47	1.58
4001386--4001491	55	1.9	56	90	1	169	35	6	12	45	1.68
4002123--4002156	13	2.5	14	85	9	52	35	2	2	58	1.28
4002127--4002159	13	2.5	13	95	0	57	36	3	3	57	1.29
4004912--4005178	115	2.3	114	80	5	281	28	22	18	30	1.97
4007289--4007323	17	2.1	17	88	0	52	20	0	8	71	1.11
4017827--4017875	24	2.0	24	84	4	62	57	4	8	30	1.47
4018051--4018097	21	2.1	23	84	7	62	61	6	6	25	1.44
4020124--4020161	20	1.9	20	88	0	58	31	5	2	60	1.33
4024115--4024146	16	2.0	16	93	0	55	53	0	0	46	1.00
4029323--4029350	13	2.2	13	100	0	56	39	14	0	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036443--4036471	14	2.1	14	100	0	58	20	6	13	58	1.58
4038409--4038522	51	2.2	51	84	6	142	42	8	15	32	1.78
4041646--4041670	11	2.3	11	100	0	50	36	0	44	20	1.52
4060953--4061371	208	2.0	210	89	1	635	35	15	19	30	1.92
4079395--4079434	15	2.6	16	84	8	64	45	30	10	15	1.78
4081332--4081637	123	2.5	119	85	6	416	15	11	37	35	1.84
4082803--4082945	63	2.3	63	89	4	200	39	13	13	32	1.85
4082825--4082953	63	2.0	63	98	0	249	39	13	13	32	1.85
4088470--4088502	13	2.5	14	90	9	52	48	0	0	51	1.00
4095161--4095215	11	5.1	11	72	12	51	65	3	0	30	1.10
4095163--4095257	32	2.9	32	77	12	97	56	7	0	35	1.27
4097202--4097247	23	2.0	24	95	4	85	4	4	15	76	1.11
4097210--4097259	22	2.3	22	83	10	59	8	6	18	68	1.36
4100166--4100204	14	2.6	14	84	8	51	66	5	0	28	1.12
4107595--4107645	26	1.9	27	92	4	86	41	0	0	58	0.98
4114452--4114481	5	6.0	5	100	0	60	40	0	0	60	0.97
4115351--4115379	7	4.3	7	91	8	51	86	0	13	0	0.58
4115351--4115375	13	1.9	13	100	0	50	88	0	12	0	0.53
4127392--4127441	24	2.1	24	100	0	100	40	4	12	44	1.60
4131253--4131285	10	3.3	10	100	0	66	42	0	0	57	0.98
4131965--4132006	21	2.0	20	82	13	50	54	0	2	42	1.13
4132261--4132302	21	2.0	21	81	9	50	69	4	2	23	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4132769--4132810	17	2.4	18	88	7	61	69	4	2	23	1.20
4132851--4132917	19	3.2	20	73	16	57	65	1	4	28	1.21
4132889--4132927	19	2.1	19	90	0	60	61	0	0	38	0.96
4142796--4143236	243	1.8	243	91	1	740	36	18	17	27	1.93
4155056--4155256	100	2.0	100	95	0	357	18	24	29	27	1.98
4156491--4156552	26	2.4	26	80	0	70	37	14	22	25	1.92
4162461--4162531	19	3.8	19	75	20	69	35	0	5	59	1.21
4162470--4162529	21	3.1	19	82	15	70	35	0	3	61	1.12
4162614--4162653	9	4.4	9	83	0	53	32	7	10	50	1.64
4164113--4164155	18	2.2	20	88	8	63	25	0	6	67	1.15
4168798--4169992	358	3.4	338	82	8	1124	37	16	11	34	1.86
4168949--4170094	358	3.2	363	86	4	1491	38	15	12	34	1.84
4172223--4172258	16	2.2	17	90	5	56	0	16	0	83	0.65
4172223--4172270	16	3.1	16	76	14	55	2	18	0	79	0.84
4172224--4172276	15	3.5	15	79	7	54	3	20	0	75	0.96
4178285--4178333	21	2.3	22	80	13	59	42	4	0	53	1.20
4181925--4181989	20	3.2	20	76	8	60	32	3	3	61	1.27
4191043--4191296	127	2.0	127	94	2	447	38	9	12	38	1.77
4195586--4195629	21	2.0	22	86	4	63	2	31	4	61	1.28
4196020--4196062	20	2.2	20	83	8	52	34	0	6	58	1.25
4204486--4204758	142	1.9	142	100	0	546	23	19	17	39	1.92
4207671--4207752	31	2.7	31	86	5	114	28	4	15	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4208118--4208210	30	3.1	28	76	11	78	25	4	2	67	1.20
4208223--4208306	10	8.9	9	72	12	53	33	1	8	57	1.36
4208223--4208286	19	3.4	18	77	12	58	35	0	6	57	1.24
4211559--4211663	36	3.1	33	75	17	92	60	3	0	35	1.15
4220029--4220079	23	2.3	22	79	3	57	41	3	5	49	1.45
4225709--4225749	17	2.6	16	75	24	50	36	2	0	60	1.10
4228612--4228665	16	3.4	16	92	0	90	35	1	35	27	1.68
4228879--4228920	15	2.7	16	82	14	52	52	2	0	45	1.13
4228888--4228929	15	2.9	15	82	10	52	52	0	0	47	1.00
4228882--4229316	120	3.6	120	97	0	798	49	5	1	43	1.36

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   227   228   229   230