genome.fa.s9.2.7.7.80.10.50.1000.172.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  172  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)
55925676--55926020	40	8.7	40	93	1	579	30	19	27	22	1.98
55925676--55926019	158	2.2	158	93	2	582	29	19	27	22	1.98
55927592--55927646	28	2.0	28	100	0	110	21	0	32	45	1.52
55931223--55931397	27	6.6	27	82	5	178	27	15	28	29	1.96
55931220--55931397	82	2.2	80	80	5	200	27	15	27	29	1.96
55939385--55939563	27	6.6	27	81	6	191	27	15	28	29	1.96
55939386--55939541	82	1.9	81	85	6	217	26	15	28	28	1.96
55939382--55939563	82	2.2	81	81	4	215	27	15	28	29	1.96
55965016--55965158	55	2.6	55	74	2	144	32	30	23	13	1.93
55993081--55993306	92	2.5	92	81	4	251	32	19	23	24	1.97
55998445--55998699	55	4.8	52	80	8	234	21	24	17	36	1.95
55998492--55998692	108	1.8	110	88	4	309	22	24	18	34	1.96
56001715--56001773	10	6.0	10	75	11	50	35	3	0	61	1.13
56001880--56001926	24	2.0	22	88	8	67	53	2	0	44	1.12
56001917--56001956	21	2.0	21	90	9	66	45	2	0	52	1.14
56003737--56003807	18	3.9	18	79	0	79	40	12	7	39	1.70
56004142--56004183	20	2.1	21	91	8	70	42	11	4	40	1.63
56005819--56005858	12	3.3	12	86	6	55	57	15	10	17	1.64
56005828--56005949	6	19.8	6	67	14	61	49	10	19	20	1.78
56005840--56005949	31	3.4	31	76	14	103	48	10	20	20	1.79
56005865--56005918	12	4.4	12	82	13	74	48	7	20	24	1.75
56005840--56005927	37	2.4	37	88	0	131	46	10	21	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56005828--56005949	37	3.5	37	74	13	121	49	10	19	20	1.78
56006068--56006127	27	2.3	26	85	2	75	35	20	23	21	1.96
56006089--56006152	33	2.0	32	84	3	83	35	20	23	20	1.96
56006725--56006994	27	9.9	27	78	5	186	31	10	19	38	1.86
56006811--56007030	81	2.7	81	78	10	218	30	9	22	38	1.85
56006993--56007210	27	8.1	27	82	2	213	36	5	23	34	1.77
56009348--56009387	12	3.3	12	86	6	55	57	15	10	17	1.64
56009357--56009478	6	19.8	6	68	14	70	49	11	19	19	1.78
56009369--56009478	31	3.4	31	78	14	112	48	11	20	20	1.80
56009369--56009456	37	2.4	37	92	0	140	46	11	21	20	1.82
56009357--56009478	37	3.5	37	76	13	130	49	11	19	19	1.78
56009624--56009763	67	2.0	67	86	5	190	30	22	27	18	1.97
56009695--56009746	27	2.0	26	84	3	68	34	21	26	17	1.95
56010283--56010538	27	9.4	27	72	10	112	33	8	18	38	1.82
56010348--56010497	81	1.9	81	81	8	189	29	9	18	42	1.81
56010501--56010700	27	7.4	27	82	5	226	34	8	26	31	1.85
56011755--56011822	16	4.1	16	70	21	50	45	5	1	47	1.36
56011904--56011937	4	8.0	4	87	12	50	23	2	0	73	0.97
56011904--56011937	9	4.0	8	88	11	50	23	2	0	73	0.97
56011903--56011937	13	2.7	13	90	0	61	22	5	0	71	1.07
56013369--56013420	24	2.1	26	82	7	63	48	1	5	44	1.38
56014775--56014870	15	5.8	16	76	20	81	42	3	4	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56014776--56014872	7	12.9	7	69	25	56	42	3	4	50	1.37
56014830--56014872	18	2.5	17	84	3	50	39	4	2	53	1.34
56017060--56017101	15	2.6	17	81	7	52	45	9	0	45	1.36
56017258--56017334	13	5.7	13	71	17	50	42	0	2	54	1.14
56017270--56017334	10	6.0	10	74	18	51	40	0	3	56	1.15
56024285--56024457	46	3.7	46	77	13	192	21	20	27	30	1.98
56024282--56024452	93	1.8	93	92	0	288	21	21	28	29	1.98
56028923--56028956	18	1.9	17	88	5	50	23	0	44	32	1.54
56032461--56032515	22	2.5	22	87	0	83	34	21	1	41	1.64
56032992--56033029	19	2.0	19	85	10	51	47	5	0	47	1.24
56040096--56040146	17	2.8	19	74	17	54	45	3	1	49	1.32
56040771--56040826	16	3.4	16	82	2	67	46	1	19	32	1.61
56040975--56041051	26	2.9	26	70	20	70	46	2	0	50	1.15
56041005--56041033	15	1.9	15	100	0	58	55	0	0	44	0.99
56046395--56046652	46	5.6	45	75	8	209	26	20	29	23	1.98
56046398--56046568	94	1.8	92	86	2	243	28	18	29	22	1.98
56046583--56046695	44	2.5	43	81	9	129	23	20	30	25	1.98
56053367--56053407	20	2.0	20	85	9	55	48	0	2	48	1.14
56054005--56054226	111	2.0	111	90	0	345	36	32	8	22	1.84
56057050--56057252	43	4.7	42	82	4	212	32	20	19	27	1.97
56057050--56057252	85	2.4	85	83	4	239	32	20	19	27	1.97
56057546--56057593	21	2.3	21	92	0	78	0	58	18	22	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56058142--56058307	9	17.6	9	76	11	145	31	1	20	46	1.58
56058175--56058290	38	3.0	39	93	2	207	31	0	21	46	1.57
56058487--56058976	241	2.0	241	95	1	878	33	13	17	35	1.89
56059185--56059516	183	1.8	183	95	0	610	42	14	16	26	1.86
56062456--56062498	22	2.0	22	95	0	77	48	25	11	13	1.77
56062990--56063134	77	1.9	76	92	1	245	35	21	8	34	1.85
56063973--56064163	80	2.3	83	87	7	275	27	21	15	36	1.93
56065296--56065594	41	7.3	40	87	2	375	18	23	23	34	1.96
56077637--56077709	6	12.5	6	73	5	51	73	8	2	15	1.17
56081385--56081432	21	2.3	20	79	10	51	77	4	4	14	1.08
56084625--56084653	10	2.7	11	94	5	51	41	0	20	37	1.53
56085180--56085259	24	3.2	24	72	10	72	16	27	21	35	1.94
56093103--56093277	46	3.8	46	78	13	205	21	21	29	28	1.98
56121461--56121510	26	2.0	24	88	7	73	64	6	0	30	1.18
56121481--56121539	21	2.8	21	78	12	59	69	8	0	22	1.15
56126386--56126561	46	3.8	46	76	11	180	20	20	29	29	1.98
56126382--56126554	93	1.9	93	90	2	276	20	20	30	28	1.98
56129499--56129567	15	4.6	15	79	0	75	10	17	13	59	1.60
56129499--56129578	15	5.4	14	77	7	70	8	16	13	61	1.56
56130903--56130974	35	2.1	35	100	0	144	30	13	13	41	1.84
56131987--56132162	46	3.8	46	77	11	180	19	21	30	28	1.98
56131983--56132155	93	1.9	93	90	2	276	20	21	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56151714--56151756	8	5.4	8	100	0	86	37	0	37	25	1.56
56171539--56171593	20	2.8	20	94	2	94	3	27	18	50	1.63
56177333--56177505	46	3.7	46	76	11	174	22	21	27	28	1.99
56177330--56177500	93	1.8	93	88	2	263	22	21	28	28	1.99
56177730--56177767	19	2.0	20	85	15	53	36	0	23	39	1.55
56198097--56198205	27	4.2	25	79	14	114	39	21	23	15	1.91
56201084--56201121	20	1.9	20	89	10	60	18	18	5	57	1.58
56201088--56201130	20	2.1	21	83	12	54	18	18	4	58	1.56
56203312--56203361	21	2.4	21	83	6	66	2	48	20	30	1.61
56208895--56209001	9	11.7	9	76	13	103	39	1	14	44	1.55
56209195--56209224	5	6.0	5	100	0	60	80	0	0	20	0.72
56209259--56209586	43	7.3	43	64	19	138	54	5	7	32	1.49
56209200--56209831	91	6.9	96	89	8	978	54	5	6	34	1.47
56209387--56209411	5	5.0	5	100	0	50	80	0	0	20	0.72
56209567--56209591	5	5.0	5	100	0	50	80	0	0	20	0.72
56209658--56209682	5	5.0	5	100	0	50	80	0	0	20	0.72
56209205--56209832	271	2.3	271	89	8	963	54	5	6	34	1.47
56209750--56209774	5	5.0	5	100	0	50	80	0	0	20	0.72
56209795--56210078	99	2.9	99	92	4	452	42	4	8	44	1.55
56210737--56210818	8	10.4	8	87	7	96	31	29	1	37	1.65
56210741--56210827	16	5.4	16	83	9	115	32	28	1	37	1.65
56210736--56210826	47	1.9	48	90	2	148	32	28	1	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56212026--56212066	14	2.9	14	85	3	55	39	46	0	14	1.45
56212665--56212760	41	2.4	40	84	5	122	22	27	20	29	1.99
56212749--56212834	39	2.2	39	85	6	111	17	20	23	38	1.93
56213476--56213667	25	7.8	25	84	2	235	29	22	21	26	1.99
56216700--56216746	19	2.5	18	83	10	58	68	0	25	6	1.13
56216700--56216740	20	2.0	20	86	9	57	68	0	24	7	1.15
56251433--56251503	25	2.8	25	77	10	74	28	18	23	29	1.98
56252737--56252763	10	2.7	10	100	0	54	22	11	18	48	1.79
56258285--56258309	8	3.1	8	100	0	50	76	0	0	24	0.80
56259030--56259059	15	2.0	15	93	0	51	23	10	6	60	1.52

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