genome.fa.s4.2.7.7.80.10.50.1000.19.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  19  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)
5275482--5275550	35	2.0	35	91	0	111	27	26	8	37	1.86
5276798--5276905	51	2.1	52	85	1	146	45	19	8	26	1.78
5277082--5277108	12	2.2	12	100	0	54	51	0	7	40	1.30
5279862--5280032	85	2.0	85	84	0	225	41	18	13	26	1.88
5280766--5280802	13	2.8	13	100	0	74	32	16	35	16	1.91
5285231--5285267	5	7.0	5	88	11	56	56	2	0	40	1.13
5286851--5286907	22	2.5	23	86	8	73	29	5	29	35	1.79
5287520--5287661	40	3.6	39	91	5	216	50	2	14	31	1.58
5287520--5287673	39	3.9	40	91	3	233	48	3	18	30	1.64
5287520--5287673	79	2.0	80	88	7	235	48	3	18	30	1.64
5300019--5300584	205	2.8	203	89	2	866	29	18	22	30	1.97
5300634--5301050	133	3.2	133	94	1	732	31	18	23	25	1.98
5300634--5301050	44	9.5	44	74	10	341	31	18	23	25	1.98
5302164--5302305	40	3.6	39	91	2	214	50	2	16	30	1.59
5302164--5302317	39	3.9	40	91	0	231	47	3	19	29	1.65
5302164--5302317	79	2.0	80	88	5	233	47	3	19	29	1.65
5312632--5312680	25	1.9	26	84	12	66	71	2	16	10	1.22
5314165--5314251	21	4.0	23	80	10	101	16	21	24	37	1.93
5314164--5314251	44	2.0	42	84	4	113	17	21	23	37	1.94
5320439--5320487	25	1.9	26	84	12	66	71	2	16	10	1.22
5321986--5322070	21	3.9	22	80	7	84	16	20	24	38	1.92
5329537--5329577	21	1.9	22	90	5	66	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5330583--5330616	15	2.3	15	89	0	50	47	0	17	35	1.48
5333444--5333472	15	1.9	15	100	0	58	48	6	0	44	1.29
5333639--5333683	21	2.1	21	84	8	56	42	24	13	20	1.87
5333759--5333809	21	2.5	21	84	9	61	45	31	5	17	1.72
5333957--5334006	21	2.4	21	86	0	73	34	8	18	40	1.79
5336282--5336341	29	2.1	29	100	0	120	36	31	15	16	1.90
5336789--5336824	12	3.0	12	87	0	54	25	27	5	41	1.77
5336797--5336828	16	1.9	17	93	6	57	25	28	6	40	1.79
5345334--5345528	72	2.7	71	84	4	248	25	14	23	36	1.92
5345307--5346094	253	3.1	253	97	0	1486	26	15	21	37	1.93
5345494--5345640	55	2.7	55	85	5	192	27	14	19	38	1.90
5345587--5345781	72	2.7	71	83	4	239	26	13	22	37	1.92
5345735--5345894	53	2.9	54	81	9	200	27	14	18	39	1.90
5345841--5346035	72	2.7	71	85	4	257	25	14	23	36	1.93
5346039--5346304	88	3.0	85	79	7	291	23	17	19	39	1.92
5346001--5346778	372	2.1	358	84	9	924	26	17	19	36	1.94
5346301--5346447	55	2.7	55	95	1	269	28	15	19	36	1.93
5346482--5346724	89	2.8	85	86	7	326	25	16	19	37	1.93
5346660--5346693	13	2.5	13	90	4	50	20	11	8	58	1.59
5346828--5346968	72	2.0	72	98	0	273	33	16	17	32	1.92
5346922--5347017	49	2.0	49	97	0	183	30	14	21	33	1.93
5346850--5347089	121	2.0	121	93	0	408	31	15	18	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5346971--5347324	78	4.7	75	86	4	419	31	16	18	32	1.94
5347246--5347417	93	1.8	93	83	2	229	27	20	19	32	1.97
5347318--5347914	88	7.2	78	70	16	337	28	16	17	37	1.92
5347318--5347543	79	2.9	78	83	2	256	30	18	17	34	1.94
5347075--5347914	250	3.4	244	81	7	819	29	16	18	35	1.93
5347554--5347589	14	2.7	13	86	4	54	30	13	5	50	1.65
5347685--5347746	30	2.1	30	90	6	99	19	9	29	41	1.83
5347144--5347914	255	3.1	248	80	8	727	28	16	18	35	1.93
5348571--5348628	28	2.2	26	88	11	91	53	39	1	5	1.33
5348908--5348943	12	3.0	12	83	0	54	0	8	5	86	0.72
5355150--5355195	23	2.0	23	84	12	60	45	10	6	36	1.65
5355157--5355201	23	2.0	23	82	8	56	40	13	8	37	1.76
5358989--5359099	34	3.3	33	82	7	116	32	9	15	42	1.80
5359004--5359112	34	3.2	32	81	13	121	31	8	18	42	1.80
5361090--5361143	26	2.1	27	82	6	67	24	14	24	37	1.93
5361107--5361182	26	2.8	27	82	4	82	27	13	22	36	1.91
5362628--5362711	26	3.2	26	96	0	150	36	25	4	33	1.77
5363146--5363176	16	1.9	16	100	0	62	12	12	16	58	1.64
5368923--5368961	20	2.0	20	100	0	78	33	15	15	35	1.89
5370105--5370144	21	1.9	21	94	0	71	25	0	12	62	1.30
5370668--5370697	15	2.0	15	100	0	60	40	0	6	53	1.27
5376247--5376380	17	7.6	17	84	6	169	39	11	12	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376239--5376380	35	4.0	35	94	2	230	39	11	13	35	1.80
5376845--5376904	18	3.5	17	71	17	52	33	1	0	65	1.03
5380906--5380974	35	2.0	35	91	0	111	27	15	31	24	1.96
5381802--5381862	16	3.6	17	76	10	63	57	1	0	40	1.08
5392679--5392725	21	2.2	22	92	3	78	21	19	38	21	1.94
5393686--5393715	14	2.1	14	100	0	60	30	0	30	40	1.57
5394025--5394076	24	2.2	24	89	0	77	55	9	1	32	1.43
5395373--5395455	43	1.9	43	100	0	166	53	16	9	20	1.71
5399650--5399688	21	1.9	20	89	5	60	71	2	0	25	0.98
5400333--5400408	27	2.8	27	75	2	71	35	14	31	18	1.91
5407529--5407576	18	3.1	15	75	18	53	56	0	0	43	0.99
5409920--5409993	36	2.2	33	79	18	82	48	0	2	48	1.15
5410607--5410660	26	2.1	25	83	10	65	50	7	0	42	1.30
5412710--5412772	32	2.0	32	96	0	117	39	11	17	31	1.85
5421593--5421636	19	2.3	19	84	0	52	56	25	4	13	1.56
5425958--5425994	14	2.6	14	91	0	65	13	5	8	72	1.24
5430715--5430755	20	2.0	21	90	4	66	75	0	24	0	0.80
5432688--5432961	46	6.0	46	91	0	397	38	14	24	22	1.92
5436333--5436443	43	2.6	42	82	1	123	35	21	17	26	1.95
5436832--5436876	23	2.0	22	91	4	72	73	2	0	24	0.95
5436911--5436972	27	2.3	27	85	0	79	24	33	24	17	1.96
5440344--5440381	18	2.1	19	85	5	51	18	0	52	28	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5442519--5442565	6	7.8	6	95	0	85	17	17	19	46	1.84
5444232--5444281	22	2.3	22	89	0	73	18	18	36	28	1.94
5445831--5445882	24	2.2	23	90	6	86	30	26	13	28	1.94
5448741--5448782	22	1.9	22	100	0	84	50	0	0	50	1.00
5448795--5448819	13	1.9	13	100	0	50	44	8	8	40	1.63
5448863--5448929	20	3.4	20	97	2	127	47	16	10	25	1.78
5456561--5456621	29	2.1	28	82	8	70	59	0	0	40	0.98
5458846--5458889	20	2.0	22	83	12	56	50	29	2	18	1.59
5463783--5463813	13	2.4	13	94	0	53	61	0	0	38	0.96
5466168--5466234	31	2.2	30	82	10	75	35	8	13	41	1.76
5466494--5466528	17	2.1	17	88	0	52	20	14	31	34	1.92
5472262--5472292	16	1.9	16	93	0	53	41	16	19	22	1.89
5474591--5474671	40	2.0	41	97	2	155	38	22	14	24	1.92
5475516--5475575	26	2.3	26	83	11	70	26	3	6	63	1.35
5491222--5491259	15	2.5	15	95	0	67	47	28	15	7	1.74
5491323--5491385	31	2.1	31	87	3	92	28	3	11	57	1.49
5493747--5493790	13	3.2	13	78	15	52	40	0	2	56	1.11
5493753--5493790	15	2.6	15	83	4	51	42	0	2	55	1.14
5498108--5498168	31	1.9	32	83	9	81	55	4	1	37	1.31
5498138--5498180	22	2.0	22	85	0	59	53	6	4	34	1.49
5498139--5498190	22	2.4	22	80	6	52	55	5	3	34	1.42
5504783--5504922	69	2.0	69	97	0	262	47	12	13	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5505327--5505369	18	2.5	17	82	14	52	79	2	16	2	0.95
5508184--5508223	19	2.1	19	95	0	71	40	7	15	37	1.75
5514651--5514745	44	2.2	43	80	15	108	34	3	1	61	1.19
5514993--5515048	28	1.9	30	89	7	89	53	3	0	42	1.18
5515858--5515899	19	2.2	19	100	0	84	45	16	19	19	1.86
5517840--5517903	20	3.4	19	81	10	69	54	3	0	42	1.16
5517859--5517911	27	1.9	27	88	3	79	52	3	0	43	1.19
5517841--5517902	18	3.3	18	82	12	72	54	3	0	41	1.16
5519723--5520005	18	15.3	18	70	11	142	36	15	13	35	1.86
5519723--5520005	36	7.6	36	71	10	176	36	15	13	35	1.86

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