genome.fa.s4.2.7.7.80.10.50.1000.126.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  126  of  253  ( 30316 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)
39945292--39945358	29	2.3	30	85	10	95	32	4	4	58	1.38
39945972--39946206	130	1.8	127	88	3	355	24	13	23	38	1.91
39947778--39947966	3	62.7	3	69	18	63	26	6	4	62	1.37
39947930--39947973	15	2.9	14	80	12	52	25	6	2	65	1.28
39947950--39948008	15	3.8	16	70	17	52	23	15	1	59	1.45
39948029--39948116	33	2.9	30	77	11	97	30	7	0	61	1.25
39948036--39948101	36	1.9	33	87	9	96	30	9	0	60	1.27
39952420--39952459	12	3.5	12	80	13	57	37	20	5	37	1.74
39952418--39952463	22	2.1	22	100	0	92	36	17	4	41	1.69
39954298--39954463	42	4.0	42	84	0	197	21	17	30	31	1.96
39954528--39954594	32	2.1	32	91	0	107	34	10	26	28	1.90
39956985--39957026	7	5.9	7	81	15	50	83	4	11	0	0.79
39957800--39957889	46	2.0	46	86	0	126	35	18	18	26	1.95
39958315--39958721	44	9.2	44	68	9	128	30	21	22	24	1.99
39958379--39958676	133	2.2	133	93	0	515	31	21	22	24	1.98
39958246--39958584	177	1.9	177	84	3	459	31	20	21	26	1.98
39958471--39958833	177	2.1	177	85	0	483	30	22	21	25	1.99
39958536--39958877	88	3.9	88	69	10	223	31	21	22	25	1.98
39958246--39958907	310	2.1	309	88	0	984	31	20	22	25	1.98
39958514--39958879	177	2.1	177	85	1	500	30	21	21	26	1.99
39958866--39959038	44	4.0	43	64	11	102	29	17	25	27	1.98
39958514--39958943	177	2.4	177	82	4	422	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39958709--39959296	132	4.5	131	82	5	643	29	19	24	26	1.98
39958709--39959306	263	2.3	263	85	3	778	29	19	24	26	1.98
39958843--39959346	262	1.9	263	85	3	687	30	19	23	25	1.98
39959354--39959405	25	2.1	25	100	0	104	25	17	30	26	1.97
39959598--39959646	25	1.9	26	91	4	82	40	44	0	14	1.45
39959598--39959639	13	3.3	13	80	6	59	40	50	0	9	1.35
39959604--39959646	13	3.4	12	81	9	50	44	39	0	16	1.48
39959941--39959987	3	15.7	3	86	8	69	31	2	0	65	1.04
39960258--39960305	25	1.9	25	86	0	69	27	6	2	64	1.28
39960764--39960917	41	3.8	40	87	3	191	31	24	23	20	1.98
39960972--39961005	16	2.2	16	89	5	52	52	32	0	14	1.42
39960957--39961027	37	1.9	37	91	0	115	49	30	0	19	1.49
39960962--39961037	37	2.1	37	87	5	109	50	31	0	18	1.47
39961488--39961523	17	2.1	18	89	5	56	50	30	0	19	1.48
39962132--39962179	19	2.5	20	93	6	82	68	4	4	22	1.24
39962166--39962199	6	5.3	6	89	10	50	76	0	0	23	0.79
39962173--39962197	13	1.9	13	100	0	50	80	0	0	20	0.72
39962396--39962426	6	5.2	6	92	0	53	0	51	0	48	1.00
39964595--39964647	22	2.4	22	87	6	72	28	5	22	43	1.76
39966399--39966632	43	5.5	43	82	4	267	26	14	26	32	1.95
39966399--39966634	84	2.8	85	86	4	305	25	14	26	32	1.95
39966401--39966633	127	1.8	128	82	0	297	26	14	27	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39973953--39973990	18	2.1	19	90	5	60	21	0	23	55	1.44
39974229--39974280	22	2.4	22	87	6	70	23	9	23	44	1.82
39974248--39974294	22	2.1	22	84	0	58	25	8	23	42	1.82
39989142--39989206	21	3.1	21	75	0	76	33	23	21	21	1.97
39990058--39990091	11	2.8	12	86	13	52	0	23	0	76	0.79
39990173--39990215	3	14.7	3	81	13	54	60	2	0	37	1.10
39990175--39990216	13	3.2	13	82	3	57	59	2	0	38	1.10
39992524--39992614	45	2.0	45	91	0	146	38	24	9	27	1.87
39999727--39999751	9	2.8	9	100	0	50	48	20	12	20	1.80
40000064--40000174	44	2.5	43	81	10	116	29	20	28	20	1.98
40001977--40002013	18	2.1	18	90	5	58	37	13	2	45	1.58
40007160--40007243	34	2.3	38	84	8	104	41	3	7	47	1.48
40007705--40007743	20	2.0	19	85	5	51	33	0	15	51	1.44
40008636--40008686	23	2.2	23	89	0	75	52	17	3	25	1.61
40009350--40009391	21	2.0	21	90	4	66	2	35	0	61	1.09
40015164--40015205	12	3.5	12	80	0	57	7	16	42	33	1.75
40015161--40015216	24	2.3	24	96	0	103	7	25	39	28	1.82
40015441--40015566	43	3.0	43	83	2	148	25	30	19	25	1.98
40016269--40016306	19	2.0	20	84	5	51	26	26	15	31	1.96
40018192--40018224	13	2.4	14	90	5	50	54	9	9	27	1.62
40018821--40018899	36	2.3	34	83	12	108	64	3	5	26	1.31
40019878--40019912	14	2.5	14	85	0	52	71	0	17	11	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40020728--40021154	177	2.4	177	82	4	477	27	24	16	30	1.97
40034610--40034717	50	2.2	50	93	0	180	25	8	20	46	1.78
40038093--40038173	38	2.3	34	77	18	94	65	3	4	25	1.30
40038430--40038483	22	2.4	21	80	17	56	68	9	5	16	1.35
40040380--40040408	3	9.7	3	100	0	58	31	0	0	68	0.89
40043428--40043490	27	2.5	27	83	16	82	20	33	0	46	1.51
40057126--40057234	54	2.0	54	100	0	218	28	18	22	31	1.97
40057580--40057612	12	2.8	12	100	0	66	30	15	18	36	1.91
40059844--40059908	21	3.2	21	76	4	71	15	20	16	47	1.82
40062432--40062495	32	2.0	32	93	0	110	48	14	21	15	1.80
40065944--40066109	85	2.0	85	80	2	190	42	16	10	30	1.81
40066297--40066340	22	2.0	22	86	4	61	54	0	4	40	1.21
40068274--40068325	27	1.9	27	88	7	79	55	3	7	32	1.46
40072094--40072257	42	3.9	42	82	1	202	29	24	15	31	1.95
40078679--40078894	46	4.7	44	77	14	177	26	17	30	25	1.97
40083587--40083697	40	2.8	40	83	1	98	25	28	23	22	1.99
40083610--40083753	40	3.6	40	86	3	184	23	26	24	25	2.00
40322216--40322400	79	2.3	82	84	7	238	25	27	22	24	2.00
40322197--40322400	40	5.1	40	82	8	238	25	27	22	25	2.00
40328126--40328218	34	2.8	34	86	3	109	45	16	7	31	1.75
40328140--40328218	34	2.3	34	93	0	131	46	15	6	31	1.70
40330663--40330860	27	7.3	27	87	0	261	28	23	8	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40330663--40330860	81	2.4	81	91	0	306	28	23	8	39	1.83
40330850--40331041	54	3.6	52	82	6	172	39	21	9	29	1.86
40330892--40331068	27	6.7	26	85	5	221	41	21	7	29	1.81
40330892--40331124	54	4.3	53	83	5	202	41	19	8	30	1.81
40331033--40331126	27	3.4	27	81	11	118	41	17	8	32	1.79
40332050--40332223	26	6.8	26	92	2	264	27	22	22	27	1.99
40332050--40332223	51	3.4	52	93	3	300	27	22	22	27	1.99
40332368--40332459	42	2.2	42	90	0	139	30	14	19	35	1.91
40332483--40332557	31	2.4	31	93	0	132	30	17	25	26	1.97
40333398--40333438	21	1.9	22	85	5	57	48	9	0	41	1.36
40340423--40340484	31	2.0	31	100	0	124	51	12	12	22	1.74
40347980--40348164	79	2.3	81	84	7	236	24	22	27	25	2.00
40347981--40348164	40	4.6	40	83	9	216	24	22	27	25	2.00
40348033--40348197	79	2.1	79	84	6	210	26	21	27	25	1.99
40355937--40356121	79	2.3	81	84	7	236	24	22	27	25	2.00
40355938--40356121	40	4.6	40	83	9	216	24	22	27	25	2.00
40355990--40356154	79	2.1	79	84	6	210	26	21	27	25	1.99
40358007--40358116	54	2.0	54	96	0	202	40	20	7	30	1.80
40366547--40366594	15	3.1	15	76	5	51	25	20	0	54	1.45
40370415--40370570	29	5.4	28	79	9	170	23	18	22	35	1.96
40370418--40370570	58	2.6	58	87	2	209	24	17	22	35	1.95
40372727--40372791	34	1.9	34	90	0	103	29	24	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40373197--40373368	27	6.4	26	81	4	119	24	17	17	40	1.90
40373223--40373405	81	2.2	80	79	5	197	22	17	19	39	1.92
40373223--40373412	27	7.0	26	85	3	173	22	17	20	40	1.92
40373247--40373412	81	2.0	81	82	6	203	21	16	21	40	1.91
40386669--40386827	43	3.7	43	74	13	139	23	19	26	30	1.98
40392113--40392284	46	3.8	44	79	11	186	20	20	29	29	1.98
40392110--40392280	93	1.8	93	92	2	290	21	20	29	28	1.98
40395214--40395263	15	3.4	15	81	13	59	10	18	12	60	1.59
40397644--40397819	46	3.8	45	81	10	212	21	21	29	28	1.98
40397641--40397811	93	1.8	93	94	0	306	21	21	29	27	1.98

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