genome.fa.s18.2.7.7.80.10.50.1000.10.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_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   

This is table  10  of  199  ( 23841 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)
3961907--3961943	19	2.0	19	89	5	58	78	0	18	2	0.87
3970294--3970339	21	2.2	21	88	11	69	63	0	2	34	1.07
3972423--3972482	30	2.0	30	87	3	86	41	3	23	31	1.71
3972692--3972723	13	2.5	13	94	0	55	31	0	12	56	1.37
3972818--3973059	50	4.7	50	86	4	297	26	24	29	19	1.99
3972818--3973067	100	2.4	103	88	6	364	26	24	29	20	1.99
3980014--3980071	30	1.9	30	89	0	89	41	3	24	31	1.71
3980283--3980314	13	2.5	13	94	0	55	31	0	12	56	1.37
3980409--3980650	50	4.7	50	86	4	297	26	24	29	19	1.99
3980409--3980658	100	2.4	103	88	6	364	26	24	29	20	1.99
4000223--4000281	21	2.8	21	79	7	57	49	3	1	45	1.28
4000248--4000289	21	2.0	22	90	4	68	52	0	2	45	1.13
4000249--4000308	10	6.2	10	77	22	58	56	0	1	41	1.09
4000273--4000305	16	2.0	17	94	5	59	60	0	0	39	0.97
4000248--4000289	11	3.9	11	85	14	61	52	0	2	45	1.13
4000274--4000318	17	2.6	17	82	10	56	60	0	0	40	0.97
4000633--4000660	13	2.2	13	100	0	56	42	0	0	57	0.99
4003570--4003617	25	2.0	24	83	4	60	54	2	0	43	1.12
4013739--4014046	151	2.0	151	99	0	607	26	14	21	37	1.92
4031508--4031969	111	4.1	111	86	2	609	27	22	27	22	1.99
4034270--4034325	22	2.5	23	82	2	69	51	1	1	44	1.22
4034301--4034340	16	2.5	16	91	0	62	47	2	7	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4034329--4034527	66	3.1	66	93	5	331	40	5	9	45	1.58
4041093--4041159	25	2.7	25	73	13	66	64	0	1	34	1.03
4042151--4042297	41	3.6	41	92	1	242	23	29	19	28	1.98
4043879--4043903	13	1.9	13	100	0	50	68	24	0	8	1.16
4044481--4044527	14	3.3	14	77	13	51	34	6	17	42	1.74
4044510--4044549	20	2.0	20	95	0	71	35	7	15	42	1.75
4044724--4044759	18	2.0	18	88	0	54	61	8	0	30	1.26
4047854--4047908	27	2.0	27	93	6	94	27	32	21	18	1.96
4047781--4048114	102	3.3	102	92	0	562	29	27	20	21	1.98
4048442--4048505	30	2.2	29	81	10	76	29	28	6	35	1.82
4048449--4048505	30	1.9	30	85	3	80	29	24	7	38	1.82
4050835--4050893	27	2.2	27	90	6	93	33	0	0	66	0.92
4050835--4050905	27	2.6	28	86	6	83	35	0	0	64	0.94
4050846--4050901	15	3.8	16	73	22	59	39	0	0	60	0.97
4051137--4051269	66	2.0	66	98	0	257	26	16	23	33	1.95
4066328--4066554	100	2.3	99	90	4	356	31	17	20	30	1.96
4066202--4066554	100	3.4	98	80	14	349	34	15	18	31	1.92
4073379--4073437	28	2.1	27	81	9	66	23	6	1	67	1.24
4074430--4074456	13	2.1	13	100	0	54	14	7	7	70	1.32
4085162--4085205	22	2.0	23	81	4	54	15	11	2	70	1.26
4096411--4096631	60	3.7	60	94	1	356	27	16	40	15	1.88
4100953--4100993	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108370--4108460	42	2.2	42	83	0	110	43	16	18	20	1.87
4118877--4118982	53	2.0	52	94	3	187	49	16	22	11	1.78
4120074--4120164	35	2.6	35	81	10	105	49	1	3	46	1.25
4120172--4120214	18	2.4	17	81	11	50	72	0	23	4	1.04
4120349--4120414	32	2.1	32	97	0	123	37	19	9	33	1.84
4121126--4121260	37	3.4	39	73	11	114	28	15	22	34	1.94
4121404--4121443	20	2.0	20	100	0	80	40	10	20	30	1.85
4124479--4124515	19	1.9	19	100	0	74	48	2	0	48	1.15
4124468--4124524	24	2.3	24	84	3	69	45	3	1	49	1.29
4133598--4133640	18	2.4	18	84	0	59	55	0	39	4	1.20
4142994--4143033	19	2.0	20	85	4	55	52	0	2	45	1.14
4149021--4149260	122	2.0	123	91	0	392	42	17	13	26	1.87
4157832--4158021	100	1.9	97	82	5	238	26	16	8	47	1.75
4161345--4161385	20	2.1	20	86	4	57	70	2	19	7	1.22
4175964--4176004	20	2.0	20	85	0	55	53	4	4	36	1.44
4178336--4178465	46	2.8	46	91	2	208	39	9	23	28	1.85
4179889--4179947	21	2.9	19	73	24	57	69	5	6	18	1.30
4185636--4185709	29	2.5	30	84	4	87	52	5	4	37	1.43
4199187--4199211	7	3.6	7	100	0	50	64	0	0	36	0.94
4218379--4218421	21	2.0	21	100	0	86	27	0	9	62	1.25
4220351--4220406	28	2.0	28	89	0	85	17	26	17	37	1.93
4239766--4239825	31	1.9	31	86	0	84	40	13	5	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242996--4243050	24	2.3	23	75	12	58	41	0	5	52	1.24
4243513--4243537	6	4.2	6	100	0	50	16	32	0	52	1.44
4248987--4249016	15	2.0	15	93	0	51	53	0	10	36	1.35
4293446--4293532	25	3.4	25	73	10	79	32	18	25	24	1.97
4293492--4293585	49	1.9	48	82	6	118	32	17	29	20	1.95
4293546--4293605	27	2.3	27	85	5	79	30	18	30	21	1.97
4293556--4293612	27	2.1	27	86	0	78	33	14	29	22	1.93
4293634--4293704	24	2.9	24	82	2	88	38	21	28	12	1.90
4299167--4299204	4	9.5	4	100	0	76	26	0	23	50	1.50
4304702--4304743	18	2.3	18	80	8	50	54	9	11	23	1.66
4305802--4305846	10	4.3	10	80	8	54	42	4	0	53	1.21
4312319--4312361	21	2.1	20	83	12	52	48	13	0	37	1.43
4312339--4312385	24	2.0	24	84	16	62	51	17	0	31	1.46
4315146--4315394	50	4.8	50	85	4	284	20	29	24	26	1.99
4315145--4315394	100	2.4	104	88	6	357	20	29	24	26	1.99
4315489--4315520	13	2.5	13	94	0	55	56	12	0	31	1.37
4325090--4325142	26	2.0	26	100	0	106	37	18	16	26	1.93
4328198--4328268	30	2.4	30	90	0	106	26	8	19	45	1.79
4328382--4328413	14	2.3	14	94	0	55	9	0	15	75	1.05
4333252--4333342	26	3.6	26	79	7	100	17	26	23	32	1.96
4333358--4333408	24	2.1	25	81	3	59	27	23	15	33	1.95
4349126--4349164	19	2.1	19	100	0	78	25	25	5	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4381039--4381077	19	2.1	19	95	0	69	64	0	2	33	1.08
4381353--4381390	19	2.1	19	90	5	60	42	0	0	57	0.98
4382622--4382684	24	2.6	24	80	7	65	61	3	1	33	1.21
4390622--4390811	50	3.8	50	85	4	240	25	22	30	22	1.99
4404396--4404439	22	2.0	22	81	4	52	43	6	2	47	1.42
4412805--4412846	22	1.9	22	100	0	84	42	19	14	23	1.87
4424452--4424507	28	2.0	29	82	3	69	53	1	1	42	1.21
4425666--4425761	39	2.5	39	80	6	108	20	23	28	27	1.99
4431739--4431794	28	2.0	29	82	3	69	53	1	1	42	1.21
4432949--4433044	39	2.5	39	80	6	108	20	23	28	27	1.99
4434249--4434311	33	1.9	33	93	0	108	41	14	12	31	1.83
4439501--4439637	42	3.5	42	75	17	175	30	28	19	21	1.97
4439499--4439671	75	2.3	75	97	0	328	32	27	20	19	1.97
4439543--4439773	33	6.6	33	69	23	143	35	27	19	17	1.94
4439574--4439774	103	2.0	102	90	3	314	34	28	19	17	1.95
4445476--4445527	24	2.2	24	89	0	77	55	5	1	36	1.35
4447454--4447499	24	1.9	24	90	0	74	52	6	2	39	1.40
4450824--4450942	46	2.7	46	93	3	199	32	15	22	29	1.94
4452814--4452901	43	2.0	43	100	0	176	43	18	15	22	1.88
4463575--4463760	100	1.9	101	96	1	347	31	14	18	36	1.91
4477241--4477350	45	2.6	41	77	9	107	31	5	29	33	1.80
4477496--4477530	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4477567--4477601	16	2.2	16	94	0	61	34	0	11	54	1.37
4477736--4477777	15	2.7	16	82	14	52	52	2	0	45	1.13
4477745--4477786	15	2.9	15	82	10	52	52	0	0	47	1.00
4477846--4477924	28	2.9	27	70	19	65	54	1	3	40	1.26
4477952--4477999	26	1.9	25	84	16	64	52	2	0	45	1.12
4477907--4478082	92	1.9	92	80	6	205	48	4	2	44	1.35
4482476--4482559	23	3.7	23	88	0	132	44	28	7	20	1.78
4482545--4482590	22	2.1	21	84	4	56	58	19	4	17	1.55
4483337--4483365	10	2.7	11	89	10	51	10	17	6	65	1.44
4505141--4505216	33	2.3	32	80	10	82	32	18	22	26	1.97

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