genome.fa.s5.2.7.7.80.10.50.1000.92.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  92  of  318  ( 38109 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)
30773118--30773172	24	2.3	24	79	20	62	40	0	0	60	0.97
30773137--30773173	9	4.4	9	80	19	53	40	0	0	59	0.97
30773135--30773182	24	2.0	25	91	4	80	39	2	2	56	1.23
30773407--30773453	15	3.2	15	72	6	51	31	2	4	61	1.27
30774972--30775234	112	2.3	115	83	5	336	24	20	17	37	1.94
30777978--30778079	28	3.5	27	69	19	71	25	28	19	26	1.99
30777986--30778115	60	2.2	59	83	8	156	27	25	18	28	1.98
30782907--30783043	60	2.3	60	85	8	172	25	25	20	28	1.99
30782906--30783007	28	3.5	27	71	19	80	24	28	20	26	1.99
30784629--30784677	21	2.3	21	96	0	89	26	14	24	34	1.94
30784685--30784896	47	4.7	47	79	10	244	31	15	22	30	1.95
30784729--30784934	85	2.4	85	94	1	360	31	15	22	30	1.95
30784780--30784929	38	3.7	38	73	16	140	32	15	22	29	1.95
30784865--30784941	38	2.0	38	92	0	127	32	15	23	28	1.95
30787314--30787584	76	3.6	76	87	2	359	59	1	13	25	1.45
30787556--30787678	21	5.5	21	64	22	63	59	0	12	28	1.33
30787324--30787584	27	10.3	27	65	16	103	58	1	13	26	1.45
30787505--30787704	48	4.4	48	81	9	203	58	0	13	28	1.39
30787530--30787609	27	3.2	27	65	26	66	52	1	15	31	1.50
30787691--30787720	5	5.8	5	92	7	51	60	0	20	20	1.37
30787691--30787720	16	1.9	15	93	6	51	60	0	20	20	1.37
30788098--30788198	5	18.0	5	73	18	60	53	0	14	30	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30788078--30788198	30	4.0	30	75	22	96	55	0	13	30	1.44
30788102--30788183	12	6.6	12	70	22	62	53	0	14	31	1.41
30788078--30788174	17	6.0	16	73	18	78	55	0	13	30	1.38
30788099--30788197	28	3.5	27	81	10	92	52	1	15	31	1.49
30788310--30788346	17	2.1	18	90	5	58	56	0	13	29	1.37
30790344--30790469	47	2.7	47	86	2	155	29	25	15	29	1.96
30790493--30790701	31	6.7	31	87	0	274	26	25	19	29	1.98
30790679--30790855	50	3.5	49	86	3	212	27	20	16	36	1.94
30794202--30794441	90	2.7	85	77	15	238	58	13	4	24	1.53
30794202--30794441	89	2.7	85	76	14	247	58	13	4	24	1.53
30794908--30794973	27	2.4	27	94	0	114	50	31	0	18	1.47
30795164--30795267	49	2.2	46	83	8	120	25	20	9	44	1.82
30795276--30795609	112	3.0	109	77	8	341	38	15	21	24	1.92
30797253--30797301	21	2.3	21	82	0	62	4	48	18	28	1.66
30797714--30797742	13	2.1	14	93	6	51	55	6	0	37	1.27
30804293--30804337	11	3.9	11	80	11	54	35	0	2	62	1.08
30806088--30806548	46	10.0	46	88	2	552	41	13	22	21	1.88
30806106--30806543	229	1.9	230	85	2	603	42	14	22	21	1.88
30806828--30806860	17	2.0	17	94	5	59	48	0	15	36	1.45
30808032--30808057	12	2.2	12	100	0	52	30	26	7	34	1.85
30809775--30809905	9	14.7	9	71	12	74	36	0	15	47	1.51
30809869--30809900	16	2.0	16	93	0	55	34	0	15	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30812695--30812726	15	2.1	15	94	0	55	28	6	0	65	1.16
30815045--30815104	21	2.8	22	80	7	61	15	13	8	63	1.51
30819111--30819149	13	3.0	13	81	11	53	61	5	17	15	1.51
30823628--30823718	47	1.9	47	95	0	164	40	16	18	24	1.90
30827556--30827596	11	3.6	11	93	3	64	0	2	12	85	0.70
30827554--30827600	13	3.6	13	75	8	51	0	2	10	87	0.63
30829065--30829089	13	1.9	13	100	0	50	56	0	8	36	1.29
30830128--30830200	36	2.0	36	100	0	146	41	5	2	50	1.40
30832177--30832249	2	36.5	2	94	0	128	0	47	0	52	1.00
30832272--30832313	4	10.5	4	94	0	75	26	0	23	50	1.50
30833768--30833807	2	20.0	2	100	0	80	0	50	0	50	1.00
30836963--30837003	11	3.7	11	81	12	57	29	34	0	36	1.58
30836962--30837017	22	2.5	22	91	2	85	28	30	1	39	1.67
30838683--30838746	30	2.1	30	85	0	83	31	46	15	6	1.71
30838800--30838842	18	2.4	18	92	0	68	16	27	11	44	1.82
30839227--30839493	116	2.3	116	96	0	480	40	3	8	47	1.52
30839276--30839457	54	3.2	54	72	19	181	42	2	8	47	1.45
30842509--30843046	126	4.3	126	90	2	830	27	21	17	33	1.96
30843156--30843330	97	1.8	96	86	6	255	41	12	1	45	1.49
30847561--30847593	9	3.7	9	84	15	50	12	9	0	78	0.95
30847609--30847682	36	2.0	36	85	12	98	22	5	2	68	1.23
30847636--30847683	18	2.7	17	81	9	60	29	4	0	66	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30847670--30847760	22	4.1	22	68	20	55	42	0	2	54	1.12
30847672--30847752	23	3.7	22	75	15	62	39	0	2	58	1.12
30847685--30847760	22	3.5	21	72	18	66	42	0	2	55	1.14
30847806--30847843	14	2.7	15	84	12	53	36	0	2	60	1.11
30848530--30848617	9	9.4	9	74	9	70	52	2	1	44	1.21
30848530--30848617	19	4.7	18	75	9	70	52	2	1	44	1.21
30848587--30848674	32	2.7	33	79	13	101	54	1	1	43	1.15
30848639--30848680	14	3.3	13	78	15	52	59	2	0	38	1.10
30852134--30852236	30	3.4	30	94	0	179	28	26	22	23	1.99
30855381--30855431	21	2.3	23	80	13	61	62	0	0	37	0.95
30855384--30855454	23	3.2	23	82	4	65	60	2	0	36	1.11
30855394--30855462	23	3.1	22	84	10	79	55	2	0	42	1.15
30855404--30855476	23	3.3	23	79	11	71	56	2	0	41	1.14
30855459--30855515	5	11.2	5	80	12	55	75	1	1	21	0.98
30855466--30855515	21	2.5	21	84	12	54	78	2	2	18	0.95
30855469--30855515	16	2.7	18	84	12	55	78	2	2	17	0.94
30855485--30855560	36	2.1	36	83	9	93	75	2	6	15	1.13
30855562--30855625	26	2.4	28	81	7	78	45	1	3	50	1.27
30855562--30855627	27	2.5	26	82	5	78	43	1	3	51	1.26
30855778--30855816	21	1.9	21	94	5	71	51	0	0	48	1.00
30855806--30855847	18	2.4	17	88	8	57	35	0	0	64	0.94
30856102--30856188	21	4.1	21	72	10	70	54	3	0	42	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30856103--30856196	22	4.2	23	71	8	70	53	3	0	43	1.17
30856179--30856230	18	2.9	18	80	5	61	67	0	3	28	1.08
30856267--30856308	9	4.8	9	88	5	68	78	0	11	9	0.96
30856267--30856308	18	2.4	18	96	4	77	78	0	11	9	0.96
30858727--30858788	30	2.2	28	82	8	72	45	0	3	51	1.17
30858635--30858843	110	1.9	110	86	2	296	44	3	5	46	1.43
30858736--30858804	30	2.3	30	87	0	93	43	0	2	53	1.15
30859202--30859232	13	2.4	13	94	0	53	54	0	6	38	1.26
30869456--30869517	30	2.1	30	96	0	115	37	20	8	33	1.83
30875260--30875294	3	11.7	3	93	0	61	37	0	0	62	0.95
30881148--30881193	22	2.1	22	100	0	92	41	32	0	26	1.56
30882360--30882462	44	2.3	45	83	3	118	32	21	12	33	1.91
30889742--30889849	44	2.4	44	87	3	144	29	23	13	33	1.93
30899513--30899543	3	10.3	3	100	0	62	32	32	0	35	1.58
30902459--30902502	23	1.9	23	95	0	79	47	38	4	9	1.56
30903124--30903155	16	2.0	16	100	0	64	12	12	25	50	1.75
30903269--30903487	45	4.9	45	93	0	339	39	15	19	25	1.91
30905154--30905203	26	1.9	26	95	0	91	14	24	32	30	1.94
30904972--30905236	104	2.6	104	89	3	410	20	20	29	29	1.97
30906800--30906934	69	2.0	69	100	0	270	48	15	20	15	1.81
30909835--30909866	16	2.0	16	100	0	64	12	12	25	50	1.75
30909980--30910153	45	3.9	45	90	0	249	40	15	18	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30911034--30911073	16	2.5	15	88	8	53	5	12	5	77	1.09
30913810--30913920	47	2.4	47	83	6	145	35	22	16	26	1.95
30914679--30914703	4	6.2	4	100	0	50	0	24	0	76	0.80
30919573--30919607	18	2.0	17	88	5	52	45	0	0	54	0.99
30919767--30919861	45	2.1	45	90	1	147	33	27	5	33	1.79
30919840--30919909	16	4.4	16	96	0	104	32	35	0	31	1.58
30920012--30920053	19	2.2	20	83	12	52	42	0	2	54	1.13
30943516--30943731	47	4.5	46	82	14	249	38	13	24	22	1.91
30943584--30943692	55	2.0	53	91	7	175	37	12	25	23	1.91
30944804--30944850	12	3.8	12	81	13	60	65	0	12	21	1.25

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   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318