genome.fa.s9.2.7.7.80.10.50.1000.14.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: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   

This is table  14  of  250  ( 29906 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)
4057608--4057714	53	2.0	53	100	0	214	46	15	14	22	1.83
4062896--4062946	25	2.0	25	96	0	93	37	15	17	29	1.91
4063148--4063222	31	2.4	31	88	0	114	30	26	17	25	1.97
4063517--4063569	11	5.0	11	75	6	56	26	22	16	33	1.96
4063512--4063569	21	2.7	22	89	10	86	27	22	15	34	1.94
4066322--4066533	104	2.0	104	93	1	363	18	19	30	31	1.96
4066452--4066603	71	2.1	72	91	1	243	23	16	29	30	1.96
4068195--4068232	19	2.0	20	89	5	60	47	15	0	36	1.46
4084074--4084121	24	2.0	24	95	0	87	41	10	16	31	1.82
4088071--4088122	25	2.1	25	92	0	86	48	5	13	32	1.66
4091571--4091607	18	2.1	18	100	0	74	16	0	37	45	1.47
4091770--4091798	14	2.1	14	93	6	51	27	6	37	27	1.82
4104561--4104651	46	2.0	46	95	0	164	37	15	16	30	1.90
4108454--4108490	19	2.0	18	94	5	65	16	10	0	72	1.10
4109269--4109465	102	1.9	102	88	5	299	30	14	25	28	1.95
4111475--4111513	9	4.6	8	81	12	51	82	0	15	2	0.79
4111475--4111513	17	2.3	17	86	8	53	82	0	15	2	0.79
4118776--4118821	22	2.1	21	84	4	56	32	8	0	58	1.28
4118862--4119070	9	21.1	10	65	27	58	33	6	0	58	1.30
4118925--4119070	3	49.7	3	72	14	99	34	6	0	58	1.28
4119171--4119271	23	4.4	24	73	17	72	33	3	3	58	1.35
4119189--4119270	24	3.4	23	77	9	76	32	3	2	60	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119288--4119328	21	2.0	20	85	4	55	34	2	7	56	1.40
4119378--4119428	22	2.3	21	80	9	57	37	3	3	54	1.37
4119378--4119443	24	2.8	23	78	10	64	37	4	4	53	1.42
4119473--4119590	25	4.8	25	71	14	102	34	7	4	53	1.49
4119693--4119749	19	3.1	19	78	14	57	36	0	7	56	1.27
4127971--4127995	7	3.6	7	100	0	50	72	0	0	28	0.86
4127960--4128016	27	2.1	27	81	12	64	70	3	1	24	1.13
4128305--4128349	25	1.9	24	82	13	58	33	8	15	42	1.78
4135395--4135480	42	2.0	42	86	0	118	50	4	20	24	1.67
4135654--4135882	123	1.9	123	99	0	449	35	9	13	40	1.78
4136497--4136579	42	2.0	42	87	0	121	25	19	30	25	1.98
4140441--4140478	20	1.9	20	88	0	58	73	2	5	18	1.14
4141317--4141343	6	4.5	6	100	0	54	37	0	0	62	0.95
4142281--4142444	45	3.7	45	83	1	213	22	21	17	39	1.93
4142416--4142539	45	2.8	45	87	0	176	20	14	16	48	1.81
4147739--4147811	34	2.1	34	80	9	78	38	4	13	43	1.63
4148727--4148851	62	2.0	62	98	0	241	26	28	19	26	1.99
4157898--4157932	3	11.7	3	93	0	61	28	0	2	68	1.04
4166012--4166106	12	8.1	13	67	25	52	34	24	2	38	1.67
4166029--4166081	18	3.0	17	86	5	70	33	22	1	41	1.65
4166023--4166106	34	2.5	34	83	11	102	33	23	2	40	1.68
4166023--4166104	17	4.8	17	81	10	87	34	23	2	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4166235--4166267	17	2.1	16	88	11	50	27	6	0	66	1.15
4172785--4172811	13	2.1	13	100	0	54	33	22	0	44	1.53
4174306--4174350	22	2.1	22	91	4	74	13	13	20	53	1.72
4174919--4174978	30	2.0	30	83	0	75	33	3	13	50	1.58
4177148--4177214	35	1.9	35	96	0	125	28	34	22	14	1.94
4177939--4177999	22	2.9	21	80	9	70	3	14	3	78	1.00
4177938--4178007	20	3.5	20	83	11	81	2	14	2	80	0.95
4177937--4178056	51	2.3	52	84	9	156	4	12	5	78	1.06
4177962--4178029	31	2.2	30	82	10	84	4	11	2	80	0.96
4185415--4185481	35	1.9	35	96	0	125	28	34	22	14	1.94
4189161--4189196	18	2.0	18	88	0	54	25	25	19	30	1.98
4191939--4192006	32	2.1	32	100	0	136	39	16	16	27	1.89
4194819--4194866	25	2.0	25	87	4	71	68	10	0	20	1.18
4196163--4196225	26	2.3	28	86	10	87	15	6	33	44	1.72
4203740--4203765	3	8.7	3	100	0	52	30	0	0	69	0.89
4219794--4219833	14	2.9	14	84	0	53	42	17	7	32	1.77
4220135--4220200	19	3.5	19	72	2	53	57	6	0	36	1.23
4224746--4224865	51	2.4	52	80	9	142	50	1	5	41	1.36
4226295--4226360	33	2.0	33	100	0	132	45	9	18	27	1.79
4232576--4232606	16	1.9	16	93	0	53	48	6	3	41	1.45
4232802--4232860	23	2.6	23	81	7	68	27	18	20	33	1.96
4239640--4239746	43	2.5	42	79	5	117	32	17	23	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242152--4242214	29	2.2	29	88	2	92	53	19	7	19	1.68
4242159--4242216	29	2.0	29	96	0	107	48	20	8	22	1.77
4242161--4242224	29	2.2	29	88	2	94	50	21	6	21	1.71
4249043--4249087	23	2.0	23	82	8	56	37	8	13	40	1.76
4249867--4249895	8	3.8	8	90	9	51	89	0	0	10	0.48
4249867--4249895	15	1.9	15	100	0	58	89	0	0	10	0.48
4251150--4251193	18	2.3	19	85	14	56	31	6	2	59	1.36
4258036--4258085	24	2.1	24	100	0	100	40	4	0	56	1.18
4288149--4288179	2	15.5	2	100	0	62	48	0	0	51	1.00
4289263--4289288	13	2.0	13	100	0	52	46	23	7	23	1.78
4291556--4291599	22	2.0	22	95	0	79	38	18	11	31	1.86
4292465--4292508	22	2.1	21	84	12	56	65	0	0	34	0.93
4292738--4292778	21	2.0	20	86	9	57	56	9	0	34	1.32
4293275--4293352	6	12.7	6	79	11	70	66	24	2	6	1.28
4293283--4293358	39	1.9	39	89	5	118	64	23	3	7	1.37
4293277--4293368	45	2.0	45	97	0	175	63	22	4	9	1.43
4293835--4293889	28	2.0	28	92	0	92	41	16	12	29	1.85
4294498--4294538	15	2.8	15	85	3	57	17	2	14	65	1.37
4294804--4294844	20	2.0	21	90	4	66	26	17	7	48	1.73
4304527--4304597	25	2.8	25	86	0	88	21	18	23	36	1.95
4306991--4307022	15	2.1	15	100	0	64	53	6	28	12	1.62
4308870--4308964	47	2.0	47	100	0	190	45	16	4	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4311332--4311404	37	2.0	36	86	5	103	38	4	10	46	1.58
4316898--4316945	21	2.3	20	76	13	53	52	0	6	41	1.27
4317244--4317311	35	1.9	36	82	14	88	64	1	2	30	1.17
4317265--4317312	18	2.5	19	80	16	55	66	2	0	31	1.03
4322298--4322340	11	4.0	11	84	6	61	20	46	4	27	1.71
4322298--4322339	21	2.0	22	90	4	68	21	47	2	28	1.63
4322872--4322945	18	4.1	18	82	0	94	31	21	13	33	1.92
4326922--4326964	11	4.0	11	84	6	61	20	46	4	27	1.71
4326922--4326963	21	2.0	22	90	4	68	21	47	2	28	1.63
4328977--4329200	43	5.2	43	86	0	286	28	29	17	25	1.97
4334218--4334254	15	2.6	14	95	4	65	43	29	5	21	1.75
4334208--4334275	7	9.6	7	74	7	57	47	26	2	23	1.66
4334515--4334733	41	5.4	41	86	4	275	17	21	24	36	1.94
4334515--4334764	41	6.1	40	85	7	256	18	20	24	37	1.94
4334515--4334757	122	2.0	123	81	10	293	18	21	24	36	1.95
4336492--4336557	33	2.0	33	100	0	132	30	27	6	36	1.81
4341665--4341718	26	2.1	26	100	0	108	46	27	3	22	1.69
4346456--4346493	20	1.9	20	100	0	76	52	5	18	23	1.65
4348833--4348861	3	9.7	3	100	0	58	34	0	0	65	0.93
4353336--4353373	17	2.3	16	90	4	58	78	2	2	15	0.97
4353349--4353456	19	5.4	20	70	17	64	62	0	3	32	1.19
4353370--4353456	30	2.8	31	76	10	99	60	0	3	35	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4353370--4353465	10	9.6	10	69	13	63	62	1	3	33	1.18
4353411--4353444	11	3.2	11	83	8	52	70	0	2	26	1.01
4353408--4353495	29	3.2	29	78	12	78	65	1	2	30	1.12
4353410--4353465	21	2.8	20	73	18	53	66	1	1	30	1.12
4354167--4354201	18	1.9	18	88	0	52	42	5	0	51	1.25
4355578--4355635	28	2.1	28	90	0	89	37	8	10	43	1.70
4357166--4357203	19	2.1	19	90	5	60	34	0	5	60	1.19
4357251--4357325	30	2.5	30	81	10	82	34	2	6	56	1.40
4357297--4357352	24	2.3	25	82	14	64	30	3	8	57	1.47
4357409--4357445	19	1.9	19	94	0	65	32	13	2	51	1.55

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