genome.fa.s7.2.7.7.80.10.50.1000.13.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: A07
Parameters: 2 7 7 80 10 50 1000
Length:  93829987

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   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   

This is table  13  of  295  ( 35342 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)
4103563--4103695	57	2.3	58	88	1	196	36	9	18	36	1.83
4106192--4106224	11	2.9	12	86	13	52	33	0	0	66	0.92
4106346--4106406	30	2.0	30	90	0	95	55	11	6	26	1.59
4106389--4106418	12	2.6	11	90	10	51	80	0	0	20	0.72
4106440--4106482	22	2.0	22	90	0	68	58	13	11	16	1.64
4106447--4106509	11	5.7	11	79	7	58	61	7	14	15	1.54
4106447--4106497	22	2.3	22	86	6	68	58	9	15	15	1.62
4110361--4110389	4	7.2	4	100	0	58	0	24	0	75	0.80
4121541--4121584	19	2.4	19	85	7	56	43	0	6	50	1.29
4124426--4124476	26	1.9	27	92	4	86	21	3	11	62	1.45
4133171--4133206	18	2.0	18	100	0	72	38	22	0	38	1.54
4136011--4136055	3	15.3	3	86	4	65	71	0	28	0	0.87
4136770--4136801	3	10.7	3	100	0	64	0	34	0	65	0.93
4136814--4136897	27	3.1	27	96	0	159	14	39	28	17	1.89
4142363--4142524	80	2.0	81	92	2	272	40	11	19	29	1.87
4143540--4143567	3	9.3	3	100	0	56	32	0	0	67	0.91
4146949--4146995	21	2.2	22	92	3	78	21	19	38	21	1.94
4154809--4154854	19	2.4	19	82	13	58	45	2	0	52	1.13
4154809--4154856	18	2.5	20	76	16	55	45	2	0	52	1.12
4161244--4161346	46	2.2	48	87	3	147	34	14	24	26	1.94
4165117--4165219	46	2.2	48	87	3	147	34	14	24	26	1.94
4170834--4171052	111	2.0	111	89	1	341	34	13	10	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4175682--4175708	13	2.1	13	100	0	54	29	7	0	62	1.22
4187864--4188103	120	2.0	120	97	0	453	26	12	18	42	1.85
4201516--4201565	11	4.7	11	82	9	68	30	32	0	38	1.58
4201508--4201565	20	2.7	21	84	10	73	31	29	0	39	1.57
4202713--4202779	21	3.1	21	79	8	89	37	23	20	17	1.94
4203149--4203221	15	4.8	15	91	1	101	52	12	0	35	1.39
4203152--4203242	45	2.0	44	83	6	112	51	15	1	31	1.51
4204442--4204485	21	2.2	20	87	4	61	6	20	6	65	1.39
4204492--4204523	5	6.2	5	96	3	55	56	0	0	43	0.99
4206456--4206865	116	3.5	116	96	0	739	40	3	9	46	1.53
4208198--4208387	49	3.7	49	83	7	211	22	27	24	25	1.99
4208490--4208521	13	2.5	13	94	0	55	56	12	0	31	1.37
4208733--4208790	30	1.9	30	89	0	89	31	24	3	41	1.71
4212604--4213142	126	4.3	126	89	0	783	27	21	17	33	1.95
4213186--4213429	98	2.5	98	81	9	275	39	16	2	41	1.60
4219848--4219898	9	5.7	9	95	0	84	23	9	27	39	1.86
4222359--4222403	13	3.5	13	87	6	65	66	4	0	28	1.11
4222692--4222721	13	2.2	14	94	5	53	30	0	6	63	1.20
4225584--4225626	20	2.2	20	91	0	68	25	11	11	51	1.72
4230045--4230076	6	5.3	6	96	0	55	81	3	0	15	0.82
4230639--4230738	9	10.4	10	75	15	95	36	2	1	61	1.14
4230639--4230738	19	5.2	19	68	13	62	36	2	1	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4230635--4230738	20	5.3	20	70	16	76	36	1	0	60	1.14
4230639--4230731	29	3.2	30	76	14	106	35	2	1	61	1.15
4231393--4231458	19	3.4	19	79	4	78	33	3	24	39	1.71
4231381--4231456	39	1.9	39	86	0	107	30	5	23	40	1.77
4242465--4242675	108	1.9	109	86	6	300	50	9	2	36	1.50
4255845--4255898	19	2.8	19	83	8	56	64	3	0	31	1.11
4268715--4268757	22	2.0	22	86	9	61	27	6	4	60	1.43
4279559--4279637	3	26.3	3	89	0	122	31	2	1	64	1.15
4279768--4279851	36	2.3	37	82	12	102	35	8	2	53	1.44
4282942--4283009	27	2.5	28	82	17	99	51	0	1	47	1.09
4284566--4284608	22	1.9	23	85	4	61	48	4	0	46	1.22
4285768--4285819	24	2.2	24	89	0	77	55	9	1	32	1.43
4291870--4291941	36	2.0	36	94	0	126	50	6	18	25	1.71
4292241--4292404	40	4.2	38	71	10	109	59	4	2	33	1.30
4292318--4292383	10	6.6	10	75	15	57	65	4	3	27	1.27
4292320--4292402	19	4.3	19	71	19	64	63	3	3	28	1.28
4292318--4292403	20	4.4	18	75	16	66	63	3	3	29	1.27
4307038--4307087	24	2.1	24	84	0	64	50	18	8	24	1.73
4308470--4308774	152	2.0	153	96	0	567	49	22	7	20	1.74
4315778--4315846	36	1.9	35	82	2	84	39	5	1	53	1.34
4321927--4322020	39	2.4	39	81	8	104	25	28	21	24	1.99
4323598--4323628	5	6.0	5	92	7	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4324422--4324473	24	2.2	24	86	6	70	34	21	25	19	1.96
4327163--4327201	18	2.2	18	85	0	51	61	2	23	12	1.43
4330926--4330950	13	1.9	13	100	0	50	24	24	12	40	1.88
4334161--4334236	39	2.0	39	94	2	136	34	5	6	53	1.49
4336147--4336233	31	2.9	30	81	13	99	57	4	9	28	1.50
4336735--4336796	3	20.7	3	100	0	124	0	32	0	67	0.91
4339676--4339721	23	2.0	23	83	8	58	47	0	2	50	1.13
4341347--4341384	20	1.9	20	94	0	67	21	0	7	71	1.11
4341345--4341384	11	3.8	11	80	12	57	22	0	7	70	1.12
4346491--4346545	28	2.0	27	85	3	74	58	0	1	40	1.09
4346703--4346753	22	2.4	22	80	9	61	47	1	1	49	1.24
4346883--4346912	6	4.8	6	95	4	51	66	0	0	33	0.92
4347023--4347073	21	2.4	21	83	0	57	37	35	3	23	1.74
4349457--4349545	44	2.0	44	100	0	178	22	11	6	59	1.55
4352378--4352415	16	2.2	18	86	9	53	31	0	5	63	1.17
4359748--4359864	51	2.3	51	95	0	207	26	23	17	33	1.96
4362610--4362661	24	2.2	24	92	0	86	55	7	1	34	1.39
4363741--4363806	4	16.5	4	100	0	132	25	0	24	50	1.50
4376475--4376521	20	2.3	20	100	0	94	48	8	8	34	1.64
4388496--4388542	20	2.3	20	100	0	94	48	8	8	34	1.64
4403085--4403148	26	2.5	24	79	18	67	57	1	3	37	1.24
4406195--4406224	11	2.9	10	90	9	51	40	0	3	56	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4406345--4406369	12	2.1	12	100	0	50	40	0	8	52	1.31
4406695--4406728	13	2.5	14	85	4	52	73	0	0	26	0.83
4407606--4407673	16	4.2	16	90	0	100	30	0	30	38	1.58
4407912--4407946	18	2.0	17	88	5	52	54	0	0	45	0.99
4408692--4408721	13	2.3	13	94	0	51	63	13	3	20	1.43
4412331--4412372	12	3.5	12	83	9	50	0	30	0	69	0.89
4417986--4418046	27	2.3	27	100	0	122	9	16	18	55	1.67
4421719--4421761	22	2.0	22	85	0	59	11	9	16	62	1.53
4421976--4422005	14	2.1	15	93	6	53	60	0	0	40	0.97
4427585--4427727	71	2.0	71	93	0	241	29	9	24	36	1.88
4428521--4428565	19	2.5	17	79	13	54	73	6	2	17	1.15
4431074--4431125	26	1.9	28	88	7	81	19	5	3	71	1.22
4431058--4431125	31	2.1	33	86	5	95	20	7	4	67	1.33
4431076--4431125	5	9.4	5	83	12	64	20	4	4	72	1.18
4432473--4432537	16	4.1	15	75	15	60	23	1	3	72	1.07
4434864--4434914	21	2.4	21	81	12	61	31	1	3	62	1.24
4443231--4443299	36	1.9	36	82	5	86	62	8	7	21	1.48
4455188--4455222	15	2.4	14	86	9	52	22	0	31	45	1.53
4455182--4455232	22	2.4	21	83	6	66	25	0	29	45	1.54
4455198--4455239	21	2.0	22	85	4	59	21	0	35	42	1.53
4456228--4456387	81	2.0	81	82	0	194	25	35	4	35	1.76
4456612--4456705	48	2.0	48	85	8	129	39	27	13	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4459127--4459220	48	2.0	48	83	8	120	39	26	13	20	1.90
4462882--4462934	22	2.4	23	81	12	67	28	3	22	45	1.70
4463913--4464050	43	3.2	43	79	4	143	23	17	29	28	1.97
4465069--4465152	21	4.0	21	78	6	64	5	47	17	28	1.71
4465565--4465593	13	2.1	14	93	6	51	55	10	0	34	1.34
4470593--4470736	9	16.0	9	72	12	91	36	0	15	47	1.51
4470630--4470736	18	5.8	18	74	12	101	37	0	14	46	1.52
4473553--4473652	38	2.6	38	96	0	182	20	49	10	21	1.77
4473748--4473793	22	2.0	22	83	4	56	13	2	30	54	1.50
4474128--4474212	3	28.3	3	73	17	63	29	3	1	65	1.16

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   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295