genome.fa.s4.2.7.7.80.10.50.1000.175.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  175  of  253  ( 30316 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)
56815830--56816052	103	2.2	104	92	2	369	31	31	18	17	1.95
56823299--56823350	27	1.9	27	92	0	86	28	32	23	15	1.95
56823309--56823458	71	2.1	71	90	3	232	30	29	16	23	1.96
56823378--56823599	103	2.2	103	93	1	374	31	31	18	18	1.95
56823471--56823521	26	2.0	26	96	0	93	29	35	23	11	1.90
56823724--56823763	20	2.0	21	85	5	55	57	15	0	27	1.38
56823927--56823990	30	2.2	29	81	10	76	29	28	6	35	1.82
56823934--56823990	30	1.9	30	85	3	80	29	24	7	38	1.82
56831174--56831224	21	2.4	21	93	0	84	21	25	25	27	1.99
56848508--56848559	27	1.9	27	88	7	79	32	23	23	21	1.98
56848707--56848749	22	2.0	22	85	0	59	32	23	27	16	1.96
56861353--56861449	43	2.3	43	85	0	131	26	16	22	34	1.95
56868765--56868880	43	2.7	43	80	0	133	29	15	24	31	1.95
56886917--56886989	36	2.0	36	89	0	110	45	16	13	24	1.84
56892784--56892820	14	2.7	14	80	19	51	59	10	10	18	1.59
56905877--56906043	43	3.9	43	79	8	171	26	14	25	33	1.95
56921226--56921362	57	2.4	56	80	8	143	31	16	22	29	1.95
56921658--56921694	18	2.1	18	100	0	74	21	16	18	43	1.88
56928221--56928292	27	2.7	27	77	0	81	27	12	23	36	1.91
56936091--56936123	13	2.6	13	90	4	50	48	12	0	39	1.40
56942514--56942749	81	2.9	81	85	0	319	30	22	8	39	1.83
56942514--56942749	27	8.7	27	87	0	283	30	22	8	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56942647--56943031	27	14.2	27	75	8	133	38	20	8	32	1.82
56942742--56942948	80	2.6	81	82	3	231	40	21	9	28	1.85
56942742--56943059	27	11.7	27	77	6	216	40	20	8	30	1.83
56943078--56943155	27	2.9	27	74	11	79	37	19	20	23	1.95
56943779--56943826	25	1.9	25	86	0	69	35	22	14	27	1.93
56943853--56943908	20	2.9	20	85	12	73	37	8	19	33	1.83
56943958--56944131	26	6.8	26	91	2	273	26	22	22	27	2.00
56943958--56944131	52	3.4	52	95	2	309	26	22	22	27	2.00
56944276--56944367	42	2.2	42	92	3	150	27	11	21	39	1.89
56952777--56952924	57	2.6	58	75	8	151	27	16	22	33	1.95
56953130--56953176	23	2.1	22	84	11	60	44	4	19	31	1.70
56956199--56956422	40	5.6	40	90	2	317	24	28	23	23	1.99
56958427--56958467	20	2.0	20	100	0	82	58	0	21	19	1.39
56958936--56959043	43	2.5	43	81	3	119	28	15	21	34	1.94
56962585--56962630	15	3.2	15	81	6	51	58	0	4	36	1.18
56965985--56966034	23	2.2	23	82	7	57	24	32	10	34	1.88
56974879--56974987	37	2.9	37	95	0	191	26	31	19	22	1.98
56975133--56975315	48	3.8	48	90	2	296	30	26	6	36	1.82
56975237--56975478	47	5.1	47	87	2	290	26	28	10	34	1.90
56975378--56975449	22	3.1	22	64	24	58	23	29	13	33	1.93
56975400--56975479	25	3.3	25	66	16	69	30	27	8	33	1.87
56979759--56979816	30	1.9	30	85	0	80	34	12	24	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56980208--56980424	48	4.6	46	77	10	190	27	21	29	22	1.99
56981203--56981322	55	2.2	55	84	0	159	19	20	35	25	1.95
56983805--56984072	65	4.1	65	83	2	324	35	14	17	33	1.90
56987297--56987361	33	2.0	32	85	11	89	64	13	7	13	1.48
56987417--56987490	35	2.1	35	87	5	105	18	28	21	31	1.97
56992788--56992827	21	2.0	20	90	5	62	22	30	37	10	1.87
56993999--56994181	49	3.7	50	79	11	184	24	31	18	25	1.97
56994055--56994360	46	6.5	47	78	10	231	24	29	16	28	1.97
56994104--56994363	92	2.8	92	79	9	269	24	30	16	28	1.97
56995177--56995313	39	3.5	39	89	2	213	25	23	21	29	1.99
57004909--57005170	46	5.6	45	81	12	230	24	30	16	28	1.96
57004909--57005178	92	2.9	91	82	9	316	24	31	16	27	1.96
57004814--57005170	138	2.5	142	81	8	345	24	29	16	29	1.97
57005239--57005270	15	2.1	15	100	0	64	34	18	0	46	1.49
57006288--57006326	20	1.9	21	84	5	53	66	12	0	20	1.24
57008258--57008297	20	2.0	20	100	0	80	25	0	5	70	1.08
57009183--57009256	37	2.0	38	84	7	98	32	8	24	35	1.85
57011703--57011971	48	5.6	48	77	4	247	27	20	28	23	1.99
57011705--57011978	96	2.9	94	80	4	325	27	20	28	23	1.99
57013723--57013801	37	2.1	37	88	4	115	25	30	18	25	1.98
57013920--57014316	47	8.4	47	91	1	614	28	29	9	32	1.88
57013920--57014312	143	2.8	143	93	0	637	28	29	9	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57025403--57025467	32	2.0	32	100	0	130	55	6	12	26	1.60
57027239--57027346	26	4.2	26	95	0	180	33	7	23	36	1.83
57042599--57042821	40	5.6	39	80	5	198	25	28	21	25	1.99
57042597--57042821	80	2.8	79	79	7	222	25	28	20	24	1.99
57042753--57042830	40	1.9	41	82	10	97	26	28	20	24	1.99
57045243--57045413	93	1.8	93	91	2	281	21	21	28	28	1.98
57045247--57045418	46	3.7	45	76	13	179	21	21	27	29	1.99
57048650--57048726	19	4.1	19	78	11	86	40	5	1	53	1.32
57048642--57048728	19	4.7	19	71	14	74	41	4	1	52	1.29
57058197--57058242	18	2.5	18	85	3	65	32	15	17	34	1.91
57067293--57067350	25	2.3	25	82	5	64	20	15	31	32	1.94
57070548--57070657	43	2.6	42	81	2	139	28	16	26	29	1.97
57078076--57078183	43	2.5	42	83	2	144	30	13	22	33	1.93
57099335--57099359	13	1.9	13	100	0	50	40	24	4	32	1.73
57103813--57103963	27	5.6	27	81	7	171	26	15	28	29	1.96
57103814--57103963	82	1.8	81	87	4	221	26	15	28	30	1.96
57111269--57111306	13	2.8	13	88	4	58	42	0	13	44	1.43
57111320--57111371	10	5.1	10	75	11	52	21	5	1	71	1.17
57111322--57111371	20	2.5	21	81	15	61	20	6	2	72	1.16
57113209--57113247	21	1.9	20	89	5	60	23	25	38	12	1.90
57114357--57114628	46	5.8	49	77	11	194	23	31	19	26	1.98
57114356--57114624	138	1.9	143	83	5	352	23	30	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57120789--57120819	14	2.3	13	94	5	53	83	0	3	12	0.75
57120788--57120825	19	2.1	18	85	14	51	81	0	2	15	0.80
57127631--57127668	19	2.1	19	85	14	53	76	0	2	21	0.91
57129341--57129366	12	2.2	12	100	0	52	38	15	38	7	1.76
57134464--57134634	46	3.7	46	79	6	193	21	29	20	28	1.98
57134269--57134637	94	3.9	95	73	15	295	24	29	18	26	1.98
57134269--57134634	140	2.6	144	78	8	394	24	29	18	27	1.98
57143432--57143685	48	5.3	47	79	3	204	29	28	16	25	1.96
57143497--57143709	96	2.2	96	84	5	261	30	28	16	23	1.96
57143483--57143716	48	4.9	47	81	4	200	30	27	16	24	1.97
57148173--57148366	54	3.6	54	80	6	223	35	17	24	22	1.95
57148173--57148369	55	3.6	54	82	4	236	35	17	24	22	1.95
57148483--57148515	16	2.0	17	94	5	59	36	3	24	36	1.71
57155933--57156139	40	5.2	40	87	2	256	28	28	19	22	1.98
57158179--57158409	95	2.5	92	76	10	218	34	17	25	22	1.96
57158367--57158574	54	3.9	54	79	9	226	36	17	23	22	1.95
57158375--57158563	55	3.5	53	80	7	195	35	19	23	21	1.95
57174630--57174856	48	4.7	48	90	2	287	28	31	15	24	1.95
57174666--57174857	48	4.0	48	93	0	321	29	31	15	23	1.96
57182248--57182289	20	2.1	20	95	0	75	16	21	26	35	1.94
57186463--57186505	20	2.2	19	87	8	59	16	9	4	69	1.31
57186668--57186728	32	1.9	31	83	3	77	31	11	3	54	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57192925--57192962	18	2.1	18	95	0	67	21	31	13	34	1.91
57195785--57195818	14	2.4	14	90	0	50	47	41	2	8	1.50
57196873--57197309	3	144.7	3	66	21	89	29	7	2	60	1.36
57196950--57197005	13	3.8	14	74	25	53	33	5	0	60	1.19
57197023--57197060	17	2.2	17	95	0	67	34	7	0	57	1.28
57197023--57197057	14	2.4	15	85	9	54	34	8	0	57	1.29
57197083--57197155	17	4.1	18	84	10	80	26	6	1	65	1.25
57197087--57197155	35	2.0	34	83	11	86	26	7	1	65	1.27
57197069--57197134	19	3.0	24	68	32	65	24	7	0	68	1.15
57202583--57202640	6	9.7	6	77	18	59	3	13	1	81	0.91

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