genome.fa.s19.2.7.7.80.10.50.1000.74.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  74  of  230  ( 27491 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)
20342020--20342058	13	2.9	13	81	7	51	41	12	5	41	1.65
20343685--20343799	34	3.4	34	77	10	126	18	25	13	42	1.87
20344859--20345002	34	4.2	34	81	5	173	18	24	15	42	1.88
20344855--20345002	69	2.2	68	87	3	208	17	24	15	42	1.88
20347806--20347850	21	2.1	22	84	12	58	13	6	6	73	1.24
20347806--20347850	20	2.1	20	84	12	54	13	6	6	73	1.24
20352149--20352187	13	2.9	14	92	7	64	46	5	12	35	1.65
20352185--20352227	22	2.0	21	86	4	59	51	4	6	37	1.50
20354300--20354387	43	2.0	43	91	4	142	32	25	0	42	1.55
20366874--20366906	17	2.0	17	88	5	50	6	21	0	72	1.05
20369626--20369781	50	3.2	50	77	1	145	31	21	10	36	1.88
20376463--20376508	19	2.4	19	77	19	51	43	2	15	39	1.59
20379988--20380038	25	2.0	25	92	0	84	39	21	17	21	1.93
20400565--20400597	6	5.5	6	100	0	66	51	33	0	15	1.43
20402744--20402791	13	3.7	13	94	0	87	25	8	27	39	1.84
20405404--20405455	26	2.0	26	100	0	104	26	30	23	19	1.98
20405939--20405999	30	2.0	30	87	6	88	44	16	36	3	1.64
20406399--20406428	14	2.1	15	93	6	53	43	0	0	56	0.99
20417402--20417485	44	1.9	44	92	0	141	28	20	20	30	1.97
20417508--20417790	44	6.5	43	68	18	126	28	20	20	30	1.98
20417816--20417937	44	2.7	45	78	15	119	27	23	18	30	1.98
20417659--20417954	147	2.0	147	91	0	475	26	23	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20417954--20418065	44	2.5	44	84	2	136	29	20	21	28	1.98
20434620--20435305	140	5.0	140	75	8	620	26	19	21	32	1.97
20434911--20435305	126	3.0	126	81	8	382	27	19	21	31	1.97
20434816--20435303	266	1.8	265	88	1	753	27	19	21	31	1.97
20437759--20437805	21	2.2	22	92	3	78	21	38	19	21	1.94
20441728--20442319	139	4.3	139	73	12	497	27	20	21	31	1.98
20441926--20442320	126	3.0	126	81	8	382	27	19	21	31	1.97
20441831--20442318	266	1.8	265	88	1	753	27	19	21	31	1.97
20442056--20442320	140	1.9	140	88	1	397	26	20	21	31	1.98
20445088--20445679	139	4.3	139	73	12	497	27	20	21	31	1.98
20445286--20445680	126	3.0	126	81	8	382	27	19	21	31	1.97
20445191--20445678	266	1.8	265	88	1	753	27	19	21	31	1.97
20445416--20445680	140	1.9	140	88	1	397	26	20	21	31	1.98
20452824--20453251	148	2.9	146	84	3	556	25	21	15	37	1.93
20452827--20453251	73	5.8	73	84	3	559	25	21	15	37	1.92
20455746--20455836	43	2.2	44	82	13	120	17	16	27	38	1.91
20457905--20457958	27	2.0	27	100	0	108	29	14	7	48	1.71
20465274--20465382	42	2.6	42	94	0	182	14	37	26	21	1.92
20467294--20467350	28	2.0	28	90	6	89	40	14	17	28	1.88
20473673--20473716	9	4.9	9	82	0	61	43	20	11	25	1.85
20484715--20484745	16	1.9	16	93	0	53	25	6	16	51	1.68
20490553--20490591	16	2.4	16	86	0	51	46	2	10	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20490525--20490579	22	2.5	22	81	0	65	50	1	3	43	1.30
20490561--20490594	16	2.1	16	94	0	59	44	0	8	47	1.34
20490583--20490725	68	2.1	67	93	2	252	41	4	9	44	1.57
20490667--20490694	9	3.1	9	100	0	56	32	0	10	57	1.33
20490791--20490834	24	1.9	24	90	9	74	61	2	0	36	1.09
20495835--20495862	13	2.2	13	100	0	56	28	14	7	50	1.69
20495838--20495871	13	2.6	13	90	0	50	35	11	2	50	1.54
20503307--20503407	48	2.1	48	90	3	159	10	12	8	67	1.42
20503303--20503426	49	2.7	44	81	12	151	10	13	9	66	1.45
20503978--20504036	31	1.9	31	86	6	84	40	6	13	38	1.71
20503978--20504044	31	2.2	31	83	5	82	38	8	14	37	1.78
20505374--20505569	100	2.0	100	91	4	324	45	6	1	46	1.36
20507279--20507347	28	2.5	28	77	15	72	39	2	0	57	1.13
20507330--20507376	8	5.4	8	83	16	58	40	0	2	57	1.11
20521979--20522026	24	2.0	24	100	0	96	20	29	0	50	1.49
20524609--20524672	28	2.2	29	86	5	94	46	18	4	29	1.69
20525020--20525061	13	3.3	13	83	9	52	30	2	2	64	1.19
20525498--20525561	33	1.9	33	81	6	76	26	6	39	28	1.80
20525729--20525753	3	8.3	3	100	0	50	36	0	32	32	1.58
20531970--20532011	21	2.0	21	86	13	59	40	4	4	50	1.45
20533639--20533744	27	3.9	27	78	9	108	28	24	14	33	1.94
20534905--20535024	42	2.8	43	87	8	160	51	7	6	34	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20544380--20544417	8	5.0	8	84	12	53	63	0	2	34	1.09
20544387--20544452	22	3.0	22	90	0	96	66	3	7	22	1.31
20544511--20544571	24	2.4	26	84	10	74	47	1	9	40	1.46
20546734--20547176	131	3.4	131	87	1	593	26	23	18	30	1.98
20547439--20547493	24	2.3	24	96	0	101	27	25	12	34	1.92
20548304--20548402	43	2.3	42	84	3	126	27	24	14	34	1.94
20548478--20548546	10	6.5	11	80	14	74	0	17	1	81	0.77
20548479--20548548	33	2.1	33	86	5	97	0	15	1	82	0.73
20548479--20548547	16	4.2	16	83	7	86	0	15	1	82	0.74
20553241--20553291	20	2.3	24	87	12	74	54	0	5	39	1.24
20553363--20553425	26	2.4	27	81	5	76	46	1	11	41	1.49
20553497--20553549	3	17.3	3	96	3	97	66	0	1	32	1.03
20554284--20554321	5	7.8	5	82	5	51	78	2	2	15	0.97
20554284--20554310	14	1.9	14	100	0	54	81	0	0	18	0.69
20556551--20556598	25	1.9	25	86	0	69	27	8	29	35	1.86
20556655--20556699	13	3.7	13	77	17	60	48	6	0	44	1.29
20556657--20556706	23	2.2	23	96	0	91	52	8	0	40	1.31
20569076--20569115	21	1.9	21	89	0	62	40	0	20	40	1.52
20569577--20569750	74	2.4	75	78	8	171	19	23	20	36	1.95
20574575--20574603	15	1.9	15	100	0	58	62	6	10	20	1.50
20575111--20575327	107	2.0	107	100	0	434	38	17	12	31	1.87
20576161--20576202	18	2.3	18	100	0	84	50	26	0	23	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20576135--20576235	51	2.0	51	84	3	132	49	16	5	27	1.69
20576179--20576288	33	3.3	33	83	3	159	46	14	7	31	1.72
20579317--20580298	120	8.2	120	98	0	1867	44	2	5	47	1.40
20580129--20580164	18	2.1	18	89	5	56	38	0	0	61	0.96
20580446--20580536	45	2.0	45	85	2	121	37	28	6	27	1.82
20580517--20580585	16	4.2	16	90	3	111	36	36	1	26	1.66
20582179--20582208	3	10.0	3	92	0	51	63	0	33	3	1.11
20584349--20584407	22	2.6	22	78	2	64	61	15	10	13	1.57
20588648--20588711	33	1.9	34	90	3	103	45	1	3	50	1.27
20591106--20591321	109	2.0	109	100	0	432	25	18	18	37	1.94
20591315--20591412	48	2.0	48	98	0	187	23	28	8	39	1.83
20592269--20592314	20	2.4	19	89	7	67	26	15	10	47	1.78
20593115--20593164	27	2.0	26	84	11	68	56	0	14	30	1.39
20599504--20600117	69	8.9	69	78	6	421	37	20	21	19	1.94
20601460--20601555	31	3.1	31	93	3	165	45	13	10	30	1.77
20607078--20607200	46	2.7	46	88	5	187	11	13	8	65	1.46
20607078--20607195	44	2.6	45	89	2	166	9	14	9	66	1.43
20607715--20607810	31	3.1	31	93	3	165	46	12	9	31	1.73
20610873--20610902	2	15.5	2	93	6	53	50	50	0	0	1.00
20613820--20613860	16	2.6	17	81	14	52	39	2	0	58	1.11
20616167--20616204	15	2.4	16	82	4	51	71	2	0	26	1.00
20621680--20621801	56	2.2	56	91	2	192	42	7	13	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20621795--20621988	23	7.7	23	80	16	145	30	0	23	45	1.53
20621847--20622158	29	10.6	29	79	13	334	28	0	26	44	1.54
20621795--20622144	29	13.7	23	73	23	183	30	0	24	45	1.53
20621846--20622158	58	5.3	58	84	12	417	29	0	26	44	1.54
20621976--20622060	40	2.1	40	93	4	145	25	0	31	42	1.56
20622005--20622031	11	2.5	11	100	0	54	18	0	44	37	1.50
20621952--20622147	69	3.0	67	82	15	250	28	0	27	43	1.55
20621923--20622110	98	2.0	93	90	5	295	28	0	27	44	1.55
20624479--20624535	29	2.0	29	93	3	98	64	0	1	33	1.04
20624569--20624618	22	2.3	22	82	6	57	40	0	28	32	1.57

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