genome.fa.s9.2.7.7.80.10.50.1000.106.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  106  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)
34241503--34241553	25	2.0	25	81	7	59	29	19	19	31	1.97
34241597--34241641	10	4.4	10	91	5	72	35	17	15	31	1.92
34241597--34241641	21	2.2	20	92	4	72	35	17	15	31	1.92
34241686--34241754	25	2.8	24	86	4	93	24	23	23	28	1.99
34243351--34243418	30	2.2	31	84	7	86	29	17	5	47	1.71
34245677--34245746	26	2.7	26	81	2	77	35	20	4	40	1.72
34245829--34246187	46	7.8	46	84	2	409	22	23	14	39	1.91
34246111--34246230	45	2.7	45	84	0	132	21	24	17	36	1.94
34248889--34248942	20	2.8	20	74	2	65	62	1	0	35	1.06
34249168--34249226	30	1.9	31	86	3	84	28	18	3	49	1.64
34249168--34249236	30	2.3	31	82	7	79	28	17	5	47	1.70
34255606--34255677	11	6.7	11	78	15	71	63	8	9	18	1.48
34255618--34255712	12	8.1	12	72	17	67	63	6	10	20	1.48
34255607--34255681	22	3.5	22	82	12	84	62	6	10	20	1.49
34255661--34255705	13	3.4	13	78	6	54	68	4	8	17	1.32
34255661--34255711	26	1.9	27	88	4	77	64	3	9	21	1.40
34257807--34257842	16	2.2	17	90	5	56	83	0	11	5	0.80
34260744--34261368	100	6.3	98	83	4	723	29	26	18	25	1.98
34260787--34261376	150	3.9	150	95	0	1054	29	26	18	25	1.98
34264463--34264647	40	4.7	40	81	6	207	24	27	23	24	2.00
34264471--34264647	79	2.2	80	81	7	200	24	27	23	24	2.00
34268850--34269059	39	5.3	39	92	2	316	24	27	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34268850--34269111	78	3.3	78	86	7	302	24	27	21	25	1.99
34275954--34276176	40	5.6	40	85	3	236	26	27	21	24	1.99
34276108--34276185	40	1.9	41	82	10	97	26	28	21	23	1.99
34296448--34296670	40	5.6	40	85	3	236	26	27	21	24	1.99
34296602--34296679	40	1.9	41	82	10	97	26	28	21	23	1.99
34303823--34304003	79	2.3	80	82	11	223	24	28	22	24	1.99
34303823--34304005	39	4.6	41	82	12	215	25	27	22	24	2.00
34318412--34318437	10	2.6	10	100	0	52	61	26	0	11	1.30
34319602--34319630	15	1.9	15	100	0	58	37	20	0	41	1.53
34321642--34321719	27	2.9	27	86	7	122	30	21	2	44	1.66
34323428--34323557	29	4.5	29	76	7	131	24	10	21	43	1.83
34331512--34331574	30	2.1	30	93	0	108	26	23	12	36	1.91
34331788--34331906	23	5.1	23	93	1	202	31	20	21	27	1.98
34331957--34332023	20	3.3	20	93	0	116	32	20	11	34	1.90
34331957--34332012	11	5.5	11	71	16	57	32	19	12	35	1.89
34336497--34336636	73	1.9	73	83	0	181	28	14	23	33	1.94
34338479--34338513	13	2.7	13	86	0	52	48	8	5	37	1.58
34342550--34342584	11	3.3	11	88	8	54	42	0	5	51	1.25
34350092--34350137	23	2.0	23	100	0	92	30	13	8	47	1.72
34359306--34359481	51	3.5	48	79	7	174	26	19	26	28	1.99
34365790--34365889	42	2.4	42	83	5	112	33	23	18	26	1.97
34366959--34367081	39	3.2	39	83	4	158	26	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34368325--34368454	27	4.9	27	93	0	217	28	20	10	41	1.84
34368286--34368706	27	15.6	27	76	8	158	38	19	9	32	1.83
34368325--34368480	81	1.9	80	82	1	195	30	19	9	39	1.84
34368446--34368641	80	2.4	81	80	2	216	42	20	8	28	1.80
34368432--34368624	54	3.6	53	75	4	190	41	21	7	28	1.81
34368663--34368714	27	1.9	27	92	7	88	42	11	11	34	1.77
34368769--34368859	27	3.4	27	83	8	114	35	19	25	19	1.96
34369658--34369845	26	7.3	26	86	4	258	27	21	23	27	1.99
34369658--34369845	52	3.7	52	93	3	312	27	21	23	27	1.99
34370051--34370129	31	2.5	31	95	0	140	30	18	24	26	1.98
34376432--34376606	46	3.8	46	74	14	155	30	29	18	21	1.97
34376439--34376610	93	1.8	93	90	2	274	29	29	19	22	1.98
34376483--34376626	46	3.1	44	71	15	114	30	27	18	23	1.97
34377894--34377973	27	3.0	27	85	5	101	33	13	15	37	1.86
34377897--34377979	26	3.2	26	82	5	87	30	12	19	38	1.88
34380934--34380962	15	2.0	15	93	6	51	20	0	6	72	1.07
34382272--34382828	185	3.0	184	88	2	803	41	17	8	33	1.80
34386921--34386967	21	2.4	18	80	19	51	40	0	4	55	1.19
34386976--34387031	27	2.2	27	84	9	73	35	3	0	60	1.14
34388469--34388530	10	6.2	9	80	15	52	72	6	0	20	1.06
34388469--34388506	10	3.8	10	93	6	60	71	5	0	23	1.07
34388480--34388534	23	2.3	24	76	17	62	69	7	0	23	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34393054--34393180	63	2.0	63	95	0	227	34	18	14	31	1.92
34410029--34410058	16	1.9	16	93	6	53	53	0	0	46	1.00
34413682--34413741	28	2.1	28	90	0	93	31	30	6	31	1.83
34419100--34419162	28	2.2	28	88	0	90	31	28	6	33	1.82
34419437--34419507	38	1.9	38	83	8	94	47	0	5	46	1.26
34419710--34419760	16	3.2	16	84	15	70	23	31	9	35	1.87
34420340--34420383	22	2.1	21	91	8	72	43	2	6	47	1.42
34420383--34420489	53	2.0	53	85	3	144	40	4	26	28	1.76
34424611--34424715	52	2.0	52	98	0	201	20	13	32	34	1.91
34429374--34429433	29	2.1	29	93	6	104	50	25	1	23	1.59
34429738--34429799	31	2.1	30	82	17	76	29	17	8	45	1.77
34429956--34430004	25	2.0	25	91	0	80	26	18	26	28	1.98
34429956--34430017	25	2.5	25	81	5	72	25	17	27	29	1.98
34432480--34432513	17	2.0	17	88	0	50	20	26	29	23	1.99
34433453--34433493	17	2.4	17	83	0	55	39	26	17	17	1.91
34435316--34435377	21	3.0	20	79	9	61	37	16	11	35	1.84
34435338--34435389	11	4.9	11	76	9	54	30	21	9	38	1.85
34435315--34435389	10	7.1	11	76	7	57	33	17	12	37	1.86
34435329--34435377	21	2.3	21	92	0	80	36	18	8	36	1.81
34435501--34435630	27	4.8	27	83	0	161	26	22	17	33	1.96
34435501--34435630	54	2.4	54	85	0	179	26	22	17	33	1.96
34435687--34435912	27	8.4	27	84	3	226	30	7	21	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34435687--34435912	81	2.8	80	83	4	267	30	7	21	41	1.80
34440885--34440971	32	2.8	32	84	5	97	45	6	4	42	1.51
34442912--34443147	116	2.0	116	95	0	427	36	13	10	39	1.79
34456149--34456372	40	5.6	40	91	1	317	26	27	20	25	1.99
34456152--34456410	80	3.3	80	86	3	274	26	27	20	24	1.99
34456147--34456410	120	2.2	118	81	5	316	27	27	20	24	1.99
34459605--34459638	1	34.0	1	100	0	68	0	0	0	100	0.00
34459723--34459773	1	51.0	1	100	0	102	0	0	0	100	0.00
34463147--34463409	40	6.6	40	88	3	325	26	27	20	24	1.99
34468652--34468690	20	2.0	20	89	0	60	15	5	2	76	1.06
34484400--34484424	7	3.6	7	100	0	50	76	0	0	24	0.80
34496849--34497023	49	3.5	49	85	3	242	27	25	20	26	1.99
34496841--34497028	100	1.9	100	93	0	322	27	25	21	26	2.00
34499059--34499103	15	3.0	15	75	12	56	62	13	8	15	1.54
34501430--34501619	49	3.8	49	80	2	209	31	23	17	27	1.97
34501435--34501631	100	2.0	101	87	2	288	31	23	17	26	1.97
34503854--34503878	11	2.3	11	100	0	50	8	16	16	60	1.58
34506758--34506886	46	2.8	46	87	0	186	20	21	28	29	1.98
34510181--34510252	37	1.9	37	91	0	117	27	29	19	23	1.98
34510398--34510581	98	1.9	96	93	4	316	30	26	7	35	1.83
34510398--34510582	48	3.8	48	92	4	309	30	26	7	35	1.83
34510552--34510698	47	3.1	47	82	1	170	28	29	10	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34518491--34518560	34	2.1	34	84	7	90	31	24	21	22	1.98
34524014--34524136	28	4.4	28	85	0	165	30	29	14	25	1.95
34524145--34524226	40	2.0	40	80	0	92	36	25	13	24	1.92
34541895--34542079	40	4.7	40	80	6	207	24	22	27	25	2.00
34541951--34542102	79	1.9	79	84	7	202	25	20	27	26	1.99
34544222--34544322	28	3.6	28	90	2	157	30	12	22	33	1.92
34544197--34544323	28	4.5	28	87	3	155	29	13	24	33	1.93
34552239--34552366	28	4.5	28	89	2	184	29	12	25	32	1.92
34552239--34552366	57	2.2	57	90	2	195	29	12	25	32	1.92
34558597--34558625	13	2.2	13	100	0	58	55	13	0	31	1.39

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