genome.fa.s15.2.7.7.80.10.50.1000.43.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  43  of  222  ( 26535 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)
12771352--12771503	81	1.8	84	80	6	186	33	31	6	28	1.83
12785669--12785706	18	2.1	18	100	0	76	34	28	15	21	1.94
12792074--12792103	15	1.9	16	93	6	53	33	0	13	53	1.40
12799749--12799868	39	2.9	39	82	13	111	20	21	20	37	1.94
12799776--12799925	45	3.3	45	85	1	194	20	20	19	40	1.92
12799905--12799953	6	7.8	6	79	6	53	18	24	16	40	1.90
12800556--12800589	9	3.8	9	92	0	59	17	0	32	50	1.47
12801409--12801571	43	3.8	42	79	11	181	32	28	16	22	1.96
12801409--12801571	85	1.9	84	82	9	206	32	28	16	22	1.96
12808099--12808135	2	18.5	2	100	0	74	0	0	48	51	1.00
12820197--12820255	29	2.1	27	84	9	75	27	16	3	52	1.60
12820618--12820677	19	3.2	19	76	9	68	60	0	0	40	0.97
12820626--12820682	18	3.1	18	78	11	71	54	0	0	45	0.99
12820684--12820757	19	3.7	19	74	13	69	68	4	0	27	1.07
12820684--12820757	10	7.4	10	73	11	53	68	4	0	27	1.07
12820600--12820757	10	16.4	9	65	17	52	64	1	1	32	1.12
12820655--12820758	29	3.5	30	76	8	97	64	2	0	31	1.15
12820706--12820767	29	2.1	29	84	0	79	66	4	1	27	1.21
12820925--12820972	19	2.5	19	81	15	55	33	10	0	56	1.34
12821004--12821065	19	3.2	19	84	6	79	30	4	4	59	1.39
12821398--12821422	13	1.9	13	100	0	50	64	0	0	36	0.94
12823344--12823371	7	4.0	7	100	0	56	42	0	28	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12827564--12827588	12	2.1	12	100	0	50	44	0	0	56	0.99
12828742--12828783	22	2.0	22	90	4	68	61	21	7	9	1.50
12829710--12829735	12	2.2	12	100	0	52	7	15	30	46	1.74
12829742--12829861	40	3.1	38	78	10	127	35	20	20	24	1.96
12829914--12830028	41	2.8	41	84	7	155	19	22	26	32	1.97
12830847--12830919	33	2.2	33	87	4	103	17	6	45	30	1.75
12835900--12835946	25	1.9	25	83	12	62	12	2	19	65	1.35
12836359--12836475	43	2.7	43	93	0	198	20	17	34	27	1.95
12837694--12837733	20	2.0	20	85	9	55	62	7	0	30	1.23
12838252--12838305	27	2.0	27	92	0	90	40	3	9	46	1.54
12841936--12841975	20	2.0	21	90	5	64	65	7	2	25	1.32
12842181--12842226	3	15.3	3	100	0	92	67	0	0	32	0.91
12843783--12843979	44	4.4	44	79	5	209	26	24	17	30	1.97
12843783--12844009	88	2.6	87	75	14	212	25	23	19	31	1.98
12843982--12844253	89	3.1	89	88	0	364	22	22	25	30	1.99
12845146--12845462	51	6.3	51	89	0	458	27	24	16	31	1.96
12848548--12848579	14	2.3	14	94	0	55	3	15	0	81	0.82
12853077--12853127	16	3.2	16	85	0	66	52	9	13	23	1.70
12853991--12854029	19	2.1	18	90	4	60	64	5	5	25	1.35
12853997--12854045	22	2.2	22	88	0	71	65	6	2	26	1.27
12854031--12854057	7	3.9	7	100	0	54	70	14	0	14	1.17
12854257--12854287	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12861311--12861366	21	2.6	21	74	2	58	25	21	21	32	1.98
12862252--12862330	28	2.8	28	86	0	95	43	16	12	27	1.84
12863521--12863549	5	5.8	5	100	0	58	41	0	0	58	0.98
12863719--12863745	4	6.8	4	100	0	54	77	0	0	22	0.76
12867325--12867369	19	2.3	20	88	11	67	62	13	15	8	1.54
12868978--12869379	88	4.6	88	90	0	606	28	28	22	20	1.99
12869027--12869346	44	7.3	44	63	6	155	26	26	24	22	2.00
12869820--12869941	44	2.8	44	81	5	140	31	19	20	28	1.97
12870383--12870454	19	3.4	21	82	15	87	36	8	15	40	1.77
12870389--12870454	21	3.0	24	85	12	81	36	7	16	39	1.77
12870728--12870787	20	2.9	20	76	14	59	26	1	6	65	1.27
12870934--12870977	17	2.6	17	85	3	63	40	11	0	47	1.39
12871055--12871101	24	2.0	24	87	8	69	31	6	0	61	1.21
12871346--12871414	23	3.2	21	73	26	56	21	4	7	66	1.34
12872724--12872765	17	2.6	16	77	7	50	40	0	4	54	1.21
12877456--12877489	14	2.5	14	95	4	61	14	0	35	50	1.44
12883574--12883599	6	4.3	6	100	0	52	50	15	0	34	1.45
12887806--12887889	26	3.2	26	77	5	89	34	10	16	38	1.84
12900057--12900086	2	15.0	2	100	0	60	0	0	50	50	1.00
12920512--12920546	18	1.9	18	88	0	52	5	48	5	40	1.51
12924668--12924806	50	2.6	54	84	7	169	24	30	22	23	1.99
12925155--12925212	30	1.9	30	85	0	80	31	24	6	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12941259--12941458	103	2.0	98	79	9	215	37	18	10	34	1.85
12944842--12944902	6	9.8	6	92	7	104	81	0	0	18	0.68
12947831--12947882	12	3.8	13	82	12	61	76	1	1	19	0.97
12947848--12947876	9	3.0	10	90	10	51	82	0	0	17	0.66
12947848--12947883	6	5.8	6	87	6	54	83	0	0	16	0.65
12948486--12948590	45	2.4	44	77	16	112	47	7	20	24	1.76
12948576--12948639	6	10.7	6	96	0	119	53	0	29	17	1.44
12948575--12948656	18	4.6	18	84	4	76	58	0	26	14	1.37
12948801--12948860	26	2.3	26	79	0	66	35	6	15	43	1.72
12952496--12952657	80	2.0	80	100	0	324	19	15	17	47	1.83
12956875--12956989	51	2.2	53	86	4	155	29	20	6	43	1.76
12960462--12960543	25	3.3	25	75	16	89	32	19	20	26	1.97
12966432--12966514	25	3.3	26	83	6	100	34	25	16	22	1.95
12977076--12977104	2	14.5	2	100	0	58	51	48	0	0	1.00
12980454--12980488	2	17.5	2	100	0	70	51	48	0	0	1.00
12984242--12984280	20	2.0	21	85	10	55	46	2	0	51	1.14
12993327--12993502	64	2.8	64	75	4	167	26	22	28	22	1.99
12994024--12994146	60	2.0	60	85	0	165	26	17	16	40	1.89
12998183--12998209	2	13.5	2	100	0	54	51	0	48	0	1.00
13001747--13001788	21	2.0	21	95	0	75	9	11	14	64	1.50
13004564--13004653	44	2.0	44	95	0	162	36	5	22	35	1.78
13010771--13010822	21	2.5	21	90	6	79	46	19	25	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13012033--13012182	41	3.7	41	82	6	191	18	18	28	34	1.94
13012028--13012238	38	5.4	38	82	5	244	18	18	28	35	1.94
13012030--13012247	76	2.8	76	85	8	278	18	18	27	34	1.95
13012214--13012262	22	2.2	22	88	0	71	22	18	22	36	1.95
13017598--13018038	114	3.8	113	79	11	458	25	21	25	27	1.99
13018302--13018332	15	2.1	15	93	0	53	19	0	45	35	1.51
13018570--13018616	14	3.3	15	82	8	62	27	0	31	40	1.57
13018600--13018652	21	2.5	22	81	9	65	20	0	39	39	1.53
13018635--13018673	7	5.4	7	81	6	51	17	0	46	35	1.49
13018631--13018673	15	2.9	15	86	3	61	18	0	46	34	1.50
13018618--13018672	22	2.5	22	82	2	58	16	0	47	36	1.47
13019410--13019446	19	1.9	19	94	0	65	62	2	0	35	1.10
13019268--13020319	279	3.8	276	87	6	1469	41	11	17	28	1.85
13019502--13020205	146	4.9	145	90	5	1121	41	12	17	28	1.86
13020080--13020321	128	1.9	128	94	1	434	43	11	16	28	1.82
13025105--13025151	20	2.4	19	79	13	51	59	2	0	38	1.09
13025213--13025528	43	7.4	42	85	3	353	22	18	29	29	1.98
13027266--13027396	55	2.3	58	86	5	178	45	1	3	49	1.26
13029102--13029184	40	2.1	40	82	10	100	36	1	0	62	1.03
13029994--13030035	21	2.0	21	86	13	61	28	0	7	64	1.20
13038195--13038233	13	3.0	13	78	14	53	25	15	7	51	1.70
13041310--13041350	21	2.0	21	85	9	57	14	21	29	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13045692--13045724	12	2.8	12	86	4	50	18	0	12	69	1.18
13050805--13051122	41	7.8	40	74	8	216	16	23	22	37	1.93
13050804--13051087	82	3.5	80	80	6	318	16	22	22	38	1.93
13051639--13051676	15	2.5	15	86	0	58	18	0	44	36	1.50
13051612--13051679	15	4.9	14	74	13	52	22	0	36	41	1.54
13053404--13053440	10	3.7	10	92	0	65	43	0	13	43	1.44
13055978--13056002	13	1.9	13	100	0	50	40	24	0	36	1.55
13056067--13056226	34	4.7	34	84	7	216	49	10	0	39	1.42
13056150--13056184	13	2.7	13	90	0	52	54	5	0	40	1.24
13056116--13056218	22	4.4	22	74	16	84	48	10	0	39	1.44

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