genome.fa.s15.2.7.7.80.10.50.1000.34.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  34  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)
10107652--10107688	18	2.0	20	89	10	60	51	5	0	43	1.24
10112637--10112804	45	3.7	45	86	0	219	20	21	18	39	1.92
10121361--10121398	19	2.0	19	89	0	58	57	0	28	13	1.36
10124233--10124285	19	2.9	19	76	15	58	64	3	0	32	1.12
10130700--10130738	20	2.0	19	85	5	51	46	17	0	35	1.49
10141258--10141303	20	2.2	21	81	14	60	30	0	6	63	1.20
10182505--10182563	29	2.0	29	96	0	109	50	10	22	16	1.75
10192665--10192790	66	1.9	66	91	0	207	37	11	23	26	1.90
10198241--10198298	31	1.9	30	82	3	71	55	3	0	41	1.17
10203075--10203166	11	8.5	11	79	11	84	34	2	11	51	1.51
10203080--10203168	6	16.2	6	82	13	95	34	1	13	50	1.49
10203075--10203146	27	2.6	28	86	4	101	34	2	9	52	1.49
10203082--10203168	33	2.7	32	84	12	106	34	1	13	50	1.50
10203081--10203168	38	2.3	39	84	11	112	35	1	13	50	1.50
10205098--10205196	42	2.4	42	91	3	155	37	12	29	21	1.89
10212289--10212335	21	2.2	22	92	3	78	21	38	19	21	1.94
10221817--10221865	21	2.3	21	82	0	53	42	2	10	44	1.49
10242175--10242261	21	4.1	21	78	12	97	35	22	21	19	1.96
10242175--10242261	44	2.0	41	82	6	102	35	22	21	19	1.96
10243417--10243481	30	2.3	27	84	7	76	40	1	0	58	1.07
10249281--10249745	40	11.6	40	92	0	761	27	20	27	24	1.99
10257005--10257389	40	9.6	40	95	1	664	28	20	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10273647--10273691	21	2.2	20	88	4	63	26	2	0	71	0.98
10274697--10274751	28	2.0	28	82	13	69	65	5	5	23	1.35
10279020--10279088	36	1.9	36	85	5	95	27	28	15	27	1.96
10280972--10281043	29	2.5	28	73	8	72	6	22	4	66	1.33
10281022--10281078	21	2.8	19	82	12	69	5	21	3	70	1.22
10283240--10283364	39	3.3	39	92	2	191	49	12	10	28	1.72
10283308--10283393	23	3.5	23	79	19	93	50	12	11	25	1.74
10284016--10284331	159	2.0	159	98	0	614	28	24	16	30	1.97
10290663--10290706	14	3.2	14	80	6	54	25	4	2	68	1.20
10294336--10294531	41	4.8	41	90	2	295	17	16	26	39	1.91
10294336--10294596	123	2.1	123	80	8	282	17	18	24	39	1.92
10294966--10295035	16	4.4	16	67	16	56	27	1	21	50	1.57
10294968--10295054	23	3.7	23	73	21	81	25	1	22	50	1.56
10294956--10295048	47	2.0	47	95	0	168	25	2	22	49	1.61
10295059--10295099	22	1.9	21	85	14	57	19	0	24	56	1.42
10299597--10299732	66	2.1	66	91	0	218	40	17	27	14	1.89
10300080--10300255	43	4.1	43	88	2	248	26	19	26	27	1.99
10300054--10300217	86	1.9	85	81	7	197	29	20	25	25	1.99
10307534--10307584	25	2.0	25	100	0	102	35	11	25	27	1.91
10309286--10309318	11	3.0	11	87	12	50	0	18	0	81	0.68
10310963--10310999	15	2.4	16	82	13	51	40	10	2	45	1.53
10314681--10314706	11	2.4	11	100	0	52	38	7	0	53	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10314666--10314813	40	3.6	39	81	7	179	35	2	0	60	1.16
10314744--10314777	17	2.0	17	88	0	50	35	0	0	64	0.94
10319782--10319852	35	2.0	35	100	0	142	40	14	22	22	1.89
10328216--10328265	16	3.0	16	81	18	50	42	2	2	54	1.23
10339123--10339164	21	2.0	21	90	0	66	19	26	21	33	1.97
10345199--10345243	16	2.8	16	79	0	54	35	6	28	28	1.83
10345857--10345883	13	2.1	13	100	0	54	37	14	0	48	1.45
10355590--10355638	24	2.0	24	100	0	98	28	12	16	42	1.84
10363717--10363753	18	2.1	18	100	0	74	40	5	10	43	1.63
10364151--10364214	13	4.9	13	75	11	60	35	21	7	34	1.83
10364156--10364214	26	2.3	27	76	8	68	38	23	8	28	1.84
10373596--10373647	27	1.9	27	88	0	77	65	11	11	11	1.48
10375912--10375945	16	2.2	15	89	5	50	67	0	26	5	1.13
10376800--10376870	27	2.6	28	82	6	92	59	16	9	14	1.61
10377637--10377692	27	2.1	26	86	3	76	53	17	10	17	1.72
10378230--10378264	2	17.5	2	100	0	70	51	0	48	0	1.00
10385871--10385979	40	2.6	43	87	8	147	23	27	27	21	1.99
10386155--10386210	11	4.9	12	80	12	64	23	25	1	50	1.59
10386155--10386231	22	3.4	23	77	10	79	24	28	1	45	1.61
10387436--10387461	7	3.7	7	100	0	52	26	0	15	57	1.38
10388694--10389364	22	31.0	22	88	4	888	46	28	0	24	1.59
10388713--10389364	43	15.1	43	87	4	893	46	28	0	24	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10388702--10389364	87	7.7	87	89	3	948	46	28	0	24	1.59
10392523--10392983	126	3.7	125	88	3	658	29	22	17	31	1.96
10393175--10393205	9	3.4	9	90	0	53	61	25	0	12	1.32
10393175--10393211	18	2.1	18	94	0	65	56	24	0	18	1.41
10393470--10393499	13	2.4	13	94	5	53	40	0	0	60	0.97
10406072--10406135	17	3.6	17	74	15	67	26	12	14	46	1.79
10406064--10406134	36	2.0	36	97	0	133	25	12	15	46	1.81
10406063--10406119	19	3.1	19	71	19	66	26	12	15	45	1.82
10406329--10406423	48	2.0	48	97	0	181	20	16	21	42	1.90
10411194--10411264	36	2.0	36	88	0	106	25	11	15	47	1.78
10415910--10415991	26	3.3	26	72	11	73	34	21	24	19	1.97
10417016--10417043	13	2.2	13	100	0	56	21	14	0	64	1.29
10418410--10418551	57	2.5	58	86	5	182	49	14	12	23	1.77
10419405--10419440	18	1.9	18	88	5	54	58	2	0	38	1.13
10421968--10422073	41	2.6	41	93	0	176	31	26	21	20	1.98
10426122--10426181	14	4.2	14	70	18	52	43	1	1	53	1.20
10427110--10427159	19	2.6	19	87	9	66	36	0	24	40	1.55
10433290--10433322	14	2.3	15	89	5	50	57	18	3	21	1.53
10451443--10451477	18	2.0	17	88	5	52	45	0	0	54	0.99
10451563--10451596	17	2.0	17	88	11	52	44	0	0	55	0.99
10451352--10451733	120	3.2	120	98	0	748	43	2	4	48	1.37
10451682--10451716	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10451952--10452019	16	4.2	16	96	0	127	38	35	0	26	1.57
10460434--10460472	18	2.2	18	85	0	51	79	0	17	2	0.84
10464970--10465408	78	5.6	78	88	0	601	36	20	7	34	1.82
10464970--10465595	156	3.9	156	81	7	707	35	21	7	34	1.83
10465393--10465424	16	2.0	16	93	0	55	18	28	6	46	1.73
10465315--10465496	94	1.9	94	90	0	292	32	22	7	37	1.81
10465237--10465580	172	2.0	172	88	2	512	33	22	7	35	1.83
10465409--10465595	78	2.4	78	86	1	268	33	23	8	34	1.84
10468574--10468615	19	2.3	18	84	12	50	28	28	0	42	1.56
10470255--10470353	42	2.4	41	79	5	117	19	26	36	18	1.94
10470841--10470910	22	3.1	22	76	11	61	28	8	18	44	1.79
10484417--10484454	18	2.1	18	85	9	51	15	15	7	60	1.57
10484464--10484564	12	8.5	11	70	18	60	27	12	8	50	1.70
10487139--10487191	14	3.6	14	80	9	70	33	3	0	62	1.13
10487090--10487203	52	2.1	52	87	9	158	31	2	0	64	1.13
10487071--10487206	30	4.8	30	77	18	139	30	2	1	65	1.13
10494183--10494786	78	7.7	78	75	9	485	33	8	22	34	1.85
10494354--10494385	16	2.0	16	93	0	55	46	6	28	18	1.73
10494276--10494463	94	2.0	94	88	0	277	36	8	21	32	1.84
10508524--10508562	18	2.2	18	85	0	51	79	0	17	2	0.84
10513046--10513484	78	5.6	78	88	0	601	36	20	7	34	1.82
10513046--10513670	156	3.9	156	81	7	698	35	21	8	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10513046--10513664	234	2.6	239	86	5	804	35	21	7	34	1.83
10513469--10513500	16	2.0	16	93	0	55	18	28	6	46	1.73
10513391--10513572	94	1.9	94	90	0	292	32	22	7	37	1.81
10513485--10513667	77	2.4	78	84	3	244	34	23	7	34	1.83
10516648--10516689	19	2.3	18	84	12	50	28	28	0	42	1.56
10518330--10518428	42	2.4	41	79	5	117	19	26	36	18	1.94
10518917--10518986	22	3.1	22	76	11	61	28	8	18	44	1.79
10533757--10533784	8	3.5	8	100	0	56	10	25	10	53	1.67
10533757--10533799	13	3.1	13	83	10	50	9	23	13	53	1.69
10538634--10538696	10	6.6	10	73	14	53	25	3	3	68	1.19

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