genome.fa.s9.2.7.7.80.10.50.1000.108.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   254   255   256   
          257   258   259   

This is table  108  of  259  ( 31025 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)
34947492--34947533	21	2.0	21	85	0	57	21	16	42	19	1.89
34951648--34951793	37	3.9	37	92	0	229	26	32	18	22	1.97
34951956--34952141	47	4.0	47	89	0	273	24	28	13	32	1.94
34956987--34957160	27	6.4	27	86	0	213	40	19	9	31	1.83
34957008--34957215	27	7.7	27	78	2	112	40	21	7	30	1.81
34957197--34957259	27	2.3	27	81	5	74	34	20	20	23	1.96
34965669--34965755	36	2.5	34	94	5	149	44	19	12	22	1.84
34971262--34971409	43	3.5	43	77	5	149	28	20	24	26	1.99
34971261--34971417	85	1.8	85	83	5	210	27	21	25	26	1.99
34976073--34976114	22	2.0	22	86	13	63	54	0	0	45	0.99
34976076--34976109	16	2.2	15	89	5	50	55	0	0	44	0.99
34978046--34978090	21	2.0	23	83	8	58	17	11	42	28	1.84
34978442--34978508	10	6.6	10	83	6	82	37	10	19	32	1.86
34978442--34978508	21	3.3	21	89	4	93	37	10	19	32	1.86
34978448--34978520	32	2.3	31	83	2	83	36	12	17	32	1.87
34978554--34978607	25	2.2	25	89	0	81	38	14	20	25	1.91
34983771--34983827	26	2.1	27	96	3	107	31	8	14	45	1.75
34988796--34989073	47	5.6	47	83	13	342	32	9	29	28	1.88
34988919--34988947	14	2.1	14	100	0	58	20	27	31	20	1.98
34988872--34988994	61	2.0	61	100	0	246	29	13	30	27	1.94
34988825--34989022	108	1.8	108	100	0	396	30	10	29	29	1.90
34996839--34996946	41	2.7	40	82	5	137	23	14	26	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34996839--34996987	81	1.8	81	85	0	208	24	15	26	33	1.95
35001847--35001900	15	3.5	15	71	14	56	3	20	0	75	0.95
35001831--35001903	31	2.4	31	95	2	130	5	24	0	69	1.09
35003795--35003842	25	2.0	24	95	4	87	41	20	4	33	1.72
35004746--35004822	28	2.7	28	78	11	68	64	0	3	31	1.11
35004797--35004869	10	7.7	10	75	17	50	60	0	2	36	1.11
35004761--35004868	17	6.0	18	71	19	66	63	0	3	32	1.12
35004752--35004868	9	12.6	9	69	17	62	63	0	3	33	1.11
35004782--35004911	28	4.6	28	72	14	97	60	1	3	33	1.24
35004746--35004858	46	2.5	44	78	12	113	64	0	3	31	1.10
35008276--35008300	13	1.9	13	100	0	50	20	16	8	56	1.65
35008572--35008639	27	2.5	27	90	0	100	22	20	16	41	1.90
35021946--35022064	43	2.8	43	79	3	134	33	21	16	27	1.95
35022392--35022430	19	2.1	19	100	0	78	43	15	0	41	1.46
35039269--35039342	23	3.3	23	85	9	107	22	22	21	32	1.98
35039237--35039335	45	2.1	47	85	7	141	24	24	17	34	1.96
35039264--35039360	23	4.2	23	80	10	81	23	24	18	32	1.97
35041858--35041904	23	2.0	23	83	4	58	17	0	51	31	1.46
35049244--35049277	17	2.0	17	88	11	52	67	0	0	32	0.91
35049531--35049606	22	3.7	21	78	11	59	42	17	6	34	1.75
35049570--35049630	17	3.4	18	93	4	97	37	13	13	36	1.83
35049986--35050259	45	6.1	45	77	6	268	26	27	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35049986--35050169	89	2.1	90	88	1	271	26	28	15	30	1.96
35050199--35050710	78	6.4	78	84	6	634	26	22	18	33	1.96
35050356--35050670	166	1.9	166	88	1	470	25	22	18	33	1.97
35050661--35050747	37	2.4	37	88	0	129	20	16	22	40	1.91
35050716--35051289	220	2.6	220	91	0	905	27	21	18	32	1.97
35052690--35052859	40	4.3	40	88	0	225	25	28	21	24	1.99
35065329--35065509	40	4.6	40	86	7	237	24	27	22	25	2.00
35065329--35065509	79	2.3	80	84	8	237	24	27	22	25	2.00
35067746--35067903	27	5.9	27	80	11	173	34	20	24	19	1.96
35067763--35067903	54	2.6	54	92	2	230	34	22	24	18	1.96
35068009--35068071	26	2.3	26	83	5	72	30	11	23	34	1.90
35069509--35069608	26	3.8	26	94	0	182	36	26	7	31	1.83
35071061--35071089	14	2.1	14	100	0	58	37	20	13	27	1.91
35072406--35072458	26	2.0	26	100	0	106	47	11	7	33	1.68
35077141--35077477	170	2.0	170	95	0	611	29	5	24	40	1.79
35081011--35081044	12	2.8	12	90	0	50	20	20	8	50	1.75
35081296--35081333	2	19.0	2	94	0	67	52	0	47	0	1.00
35081887--35082095	103	2.0	103	93	0	355	33	15	19	30	1.93
35082808--35082837	15	2.0	15	100	0	60	40	6	26	26	1.81
35088695--35088736	20	2.0	21	90	4	68	71	0	7	21	1.09
35089140--35089202	31	2.1	31	87	3	92	23	1	12	61	1.39
35091175--35091213	18	2.2	18	86	9	53	53	5	2	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35091293--35091332	19	2.2	19	86	4	55	52	2	5	40	1.37
35091367--35091406	22	1.9	22	85	10	57	65	2	5	27	1.27
35104118--35104151	16	2.1	16	100	0	68	38	11	32	17	1.86
35104717--35104849	53	2.5	54	95	3	243	32	27	18	21	1.97
35107824--35107867	15	2.9	15	82	0	61	56	11	13	18	1.66
35112286--35112542	39	6.5	40	88	6	248	25	29	21	24	1.99
35112288--35112494	39	5.3	39	93	2	319	25	29	21	23	1.99
35112288--35112500	77	2.7	79	89	5	317	25	29	20	24	1.99
35120419--35120638	40	5.6	40	86	8	258	24	28	22	24	1.99
35137361--35137413	25	2.2	25	83	12	67	43	24	0	32	1.55
35148114--35148140	13	2.1	13	100	0	54	14	33	37	14	1.88
35148191--35148241	25	2.0	25	100	0	102	39	19	11	29	1.87
35150158--35150184	13	2.1	13	100	0	54	48	14	14	22	1.81
35150661--35150749	42	2.1	42	100	0	178	22	31	25	20	1.98
35153339--35153558	79	2.8	79	83	6	250	24	26	23	25	2.00
35153339--35153558	40	5.6	40	81	5	243	24	26	23	25	2.00
35162744--35162841	28	3.5	28	73	20	80	65	3	2	29	1.19
35162744--35162818	29	2.6	29	76	17	84	66	2	1	29	1.13
35162732--35162812	38	2.2	37	80	14	87	69	3	1	25	1.13
35162744--35162841	18	5.3	18	71	18	60	65	3	2	29	1.19
35162998--35163143	9	15.3	10	67	21	66	67	0	4	27	1.16
35162999--35163049	20	2.7	18	77	14	57	68	0	1	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35163027--35163074	25	1.9	25	86	0	69	68	2	4	25	1.18
35163065--35163123	30	2.0	30	83	12	77	62	1	5	30	1.26
35163070--35163143	30	2.6	29	80	16	75	68	0	5	25	1.10
35163111--35163144	17	1.9	18	88	5	52	76	0	5	17	0.98
35163459--35163487	12	2.3	13	94	5	51	31	0	0	68	0.89
35163456--35163516	19	3.3	18	78	17	54	37	0	0	62	0.96
35163490--35163725	9	25.4	9	65	18	58	33	4	0	62	1.18
35163472--35163519	19	2.5	20	80	12	66	35	0	0	64	0.94
35163535--35163577	20	2.2	20	83	4	52	30	4	0	65	1.13
35163555--35163600	24	1.9	24	82	8	58	28	4	0	67	1.10
35163646--35163740	9	10.2	9	72	16	52	31	2	2	64	1.17
35163607--35163725	18	6.2	18	69	20	64	30	4	0	64	1.18
35163646--35163715	10	7.3	9	73	15	52	27	2	1	68	1.12
35163945--35163978	16	2.1	16	94	0	59	44	2	5	47	1.42
35165036--35165097	29	2.1	29	84	0	79	37	3	8	51	1.48
35165061--35165121	30	2.1	30	81	9	72	34	1	4	59	1.29
35181989--35182018	13	2.3	13	100	0	60	20	6	13	60	1.55
35182898--35183207	157	2.0	157	94	0	539	47	5	3	43	1.44
35183337--35183404	16	4.2	16	94	0	118	38	33	0	27	1.57
35192875--35193052	27	6.6	27	83	3	205	26	15	28	29	1.96
35192876--35193031	82	1.9	81	88	3	233	26	15	28	29	1.96
35192872--35193052	82	2.2	81	83	2	229	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35200803--35200980	27	6.6	27	83	3	205	26	15	28	29	1.96
35200804--35200959	82	1.9	81	88	3	233	26	15	28	29	1.96
35200800--35200980	82	2.2	81	83	2	229	27	15	27	29	1.96
35202585--35202633	17	2.9	17	78	6	55	40	22	16	20	1.91
35208847--35208954	45	2.4	45	98	0	207	31	16	12	39	1.85
35212794--35213022	27	8.3	28	94	3	385	25	13	29	31	1.94
35212794--35213022	55	4.2	55	96	0	413	25	13	29	31	1.94
35217789--35217816	12	2.3	12	100	0	56	7	25	35	32	1.83
35220126--35220179	27	2.0	27	85	0	72	38	7	14	38	1.75
35221184--35221254	33	2.1	33	81	2	79	30	25	21	22	1.98

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   254   255   256   
          257   258   259