genome.fa.s9.2.7.7.80.10.50.1000.146.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  146  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)
47675102--47675171	25	2.8	25	86	4	97	27	24	24	24	2.00
47676089--47676141	27	2.0	27	84	0	70	35	15	13	35	1.86
47676078--47676314	54	4.4	53	73	7	179	32	8	18	40	1.81
47676099--47676328	27	8.4	27	78	7	144	33	8	18	40	1.81
47676107--47676328	54	4.1	54	76	6	198	31	8	18	40	1.80
47676307--47676463	27	5.8	27	90	0	224	38	7	24	29	1.83
47676173--47676487	27	11.7	27	80	3	159	34	7	21	35	1.83
47676279--47676474	81	2.4	81	82	0	257	36	7	23	32	1.83
47676442--47676502	27	2.3	27	82	0	68	32	6	18	42	1.76
47680604--47680650	23	2.0	23	100	0	94	42	12	17	27	1.85
47683529--47683566	20	1.9	20	88	0	58	68	10	18	2	1.30
47686391--47686446	18	3.0	19	67	12	53	62	0	1	35	1.06
47688554--47688603	26	2.0	26	92	4	84	20	10	4	66	1.38
47693094--47693265	46	3.7	46	77	13	199	28	27	21	22	1.99
47693098--47693269	93	1.8	93	92	0	290	27	27	21	22	1.99
47700692--47700862	46	3.7	46	76	14	190	28	26	21	22	1.99
47700696--47700866	92	1.8	93	91	1	281	28	27	21	22	1.99
47701284--47701342	29	2.0	29	93	0	100	28	25	6	38	1.81
47714920--47714991	23	3.2	23	73	7	76	30	18	25	26	1.98
47731027--47731194	91	1.8	91	93	2	293	28	28	21	21	1.99
47731022--47731191	45	3.8	44	79	9	200	29	27	21	21	1.99
47731608--47731667	30	2.0	30	90	0	93	30	25	8	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47745631--47745702	23	3.2	23	73	7	76	30	18	25	26	1.98
47750329--47750447	29	4.2	29	78	6	127	28	29	13	28	1.94
47756281--47756322	14	3.0	14	83	10	50	42	7	2	47	1.43
47758868--47758994	28	4.5	28	92	0	191	25	14	33	26	1.94
47758890--47759014	28	4.5	28	89	2	90	28	15	32	24	1.95
47761638--47761669	9	3.6	9	95	0	55	21	0	12	65	1.25
47762588--47762741	45	3.3	45	76	10	132	27	22	18	30	1.98
47762597--47762709	23	4.9	23	74	21	78	25	22	17	34	1.96
47766843--47766949	52	2.0	54	90	7	173	33	14	14	38	1.85
47772733--47772787	16	3.4	17	77	10	69	41	14	9	34	1.77
47772731--47772794	32	2.0	32	96	0	119	42	15	7	34	1.76
47772733--47772794	16	3.8	16	77	10	63	43	16	8	32	1.77
47782329--47782365	18	2.1	19	90	10	60	29	8	27	35	1.85
47785287--47785479	41	4.6	43	75	7	166	27	19	26	26	1.99
47787946--47787982	18	2.1	18	100	0	74	40	37	5	16	1.71
47790604--47790657	12	4.4	13	79	11	60	55	0	1	42	1.10
47804097--47804296	43	4.7	43	87	0	283	30	29	15	26	1.95
47803999--47804296	86	3.5	86	81	2	307	30	27	15	26	1.96
47809040--47809088	24	2.0	24	96	0	89	40	4	20	34	1.71
47809251--47809280	9	3.2	9	95	4	51	43	0	0	56	0.99
47812621--47812645	8	3.1	8	100	0	50	36	0	52	12	1.39
47813017--47813045	6	4.8	6	100	0	58	13	0	51	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47813047--47813084	18	2.1	18	90	0	58	26	2	39	31	1.70
47813517--47813553	12	2.7	15	76	24	53	21	43	8	27	1.80
47813853--47813912	9	6.7	9	73	11	52	40	33	1	25	1.66
47813863--47813940	6	12.5	6	70	12	50	38	30	3	26	1.74
47813853--47813940	18	5.1	18	77	9	76	38	31	3	26	1.73
47814166--47814203	3	12.7	3	83	10	51	0	2	28	68	1.03
47814653--47814681	12	2.3	13	94	5	51	68	0	27	3	1.05
47828385--47828438	24	2.3	23	90	6	90	29	14	3	51	1.60
47828391--47828438	24	2.0	24	100	0	96	29	12	4	54	1.56
47830540--47830607	16	4.2	16	79	17	63	44	2	1	51	1.25
47830616--47830649	17	2.0	17	88	0	50	29	17	0	52	1.45
47833475--47833526	17	2.8	17	72	16	50	63	5	7	23	1.43
47834428--47834469	19	2.2	20	82	4	50	52	2	2	42	1.27
47835335--47835378	21	2.0	22	86	4	63	9	18	0	72	1.10
47839266--47839298	17	2.0	17	94	5	59	27	0	6	66	1.15
47842280--47842347	33	2.0	34	88	2	102	35	20	10	33	1.87
47842280--47842349	34	2.1	34	86	5	97	35	20	11	32	1.88
47848804--47848855	21	2.3	23	80	9	63	1	34	0	63	1.06
47849128--47849169	17	2.5	17	100	0	84	16	11	14	57	1.66
47853833--47853906	34	2.2	34	95	2	132	52	0	9	37	1.34
47860620--47860676	28	2.0	28	86	0	78	40	14	3	42	1.62
47862151--47862237	3	30.3	3	68	21	53	63	4	1	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47862171--47862237	19	3.5	19	72	25	52	65	4	1	28	1.21
47863832--47863879	24	2.0	24	91	4	78	31	16	6	45	1.72
47867100--47867126	8	3.4	8	100	0	54	44	0	0	55	0.99
47877125--47877213	44	2.0	46	84	8	121	38	24	3	33	1.72
47877199--47877253	16	3.4	16	85	5	76	29	21	7	41	1.80
47878676--47878705	15	1.9	16	93	6	53	56	0	0	43	0.99
47879372--47879504	70	1.9	70	87	4	200	30	11	14	43	1.80
47893614--47893705	40	2.2	43	81	7	111	48	21	14	15	1.80
47893641--47893745	20	5.0	21	78	13	101	49	20	16	13	1.79
47898187--47898295	22	5.0	22	79	4	85	22	24	11	41	1.87
47903685--47903732	19	2.5	19	86	0	60	22	12	31	33	1.91
47903697--47903735	19	2.1	19	95	0	69	17	20	28	33	1.96
47905878--47905948	35	2.0	35	94	0	124	19	14	23	42	1.88
47914435--47914615	92	2.0	92	92	0	299	19	23	13	43	1.87
47914430--47914609	46	3.9	46	88	0	261	19	23	13	42	1.87
47917019--47917086	30	2.3	30	82	5	75	27	17	5	48	1.70
47920452--47920508	29	2.0	29	92	0	96	26	10	28	35	1.89
47922296--47922333	15	2.5	16	83	12	53	47	5	2	44	1.39
47922339--47922381	20	2.2	20	86	0	59	58	2	4	34	1.32
47927025--47927049	2	12.5	2	100	0	50	52	0	0	48	1.00
47927117--47927308	93	2.1	93	97	0	366	27	7	18	45	1.77
47942056--47942082	13	2.1	13	100	0	54	22	33	29	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47948608--47948655	15	3.2	14	75	13	51	77	2	20	0	0.88
47948751--47948789	6	6.5	6	100	0	78	33	0	33	33	1.58
47950641--47950687	23	2.0	23	100	0	94	21	23	17	38	1.93
47951607--47951826	48	4.6	48	73	5	176	26	17	27	29	1.97
47951607--47951825	96	2.3	96	78	3	217	26	16	27	29	1.97
47961183--47961407	40	5.7	40	85	5	287	24	21	27	26	1.99
47964332--47964380	21	2.4	20	83	12	64	42	8	26	22	1.81
47971326--47971395	19	3.5	20	90	7	108	11	24	21	42	1.85
47971567--47971614	21	2.4	19	86	6	60	41	10	25	22	1.85
47974029--47974201	93	1.9	93	95	0	310	28	28	20	22	1.99
47974022--47974197	46	3.8	46	80	7	212	29	27	20	22	1.98
47974257--47974329	38	1.9	38	94	0	128	26	23	13	36	1.92
47980942--47981003	25	2.5	25	97	0	115	61	3	1	33	1.22
47984080--47984116	9	4.1	9	92	0	65	45	13	10	29	1.77
47984318--47984357	19	2.0	20	85	4	55	27	27	0	45	1.54
47984499--47984536	19	2.0	20	84	5	51	26	26	0	47	1.52
47996339--47996423	41	2.1	41	93	0	143	23	20	21	35	1.96
48000605--48000657	3	17.7	3	100	0	106	67	0	0	32	0.91
48002491--48003434	493	1.9	488	91	1	1530	38	20	13	26	1.90
48003555--48003653	40	2.5	39	77	3	110	33	34	13	19	1.90
48011602--48011662	30	2.0	30	90	0	95	29	22	6	40	1.79
48014229--48014307	40	2.0	38	82	4	95	34	31	13	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48021046--48021093	24	2.0	25	91	4	80	52	2	25	20	1.58
48030011--48030046	18	2.0	18	88	0	54	52	0	22	25	1.47
48040636--48040782	44	3.4	42	79	9	138	23	17	25	33	1.96
48055658--48055819	47	3.5	46	88	4	209	50	12	8	29	1.70
48055710--48055800	27	3.6	27	67	24	81	48	12	9	29	1.73
48057154--48057200	14	3.1	15	75	9	51	70	4	2	23	1.16
48058124--48058212	10	9.6	9	70	11	63	61	1	1	35	1.11
48058130--48058187	19	3.0	19	87	2	80	60	0	0	39	0.97
48058125--48058205	28	2.9	27	80	5	81	61	0	1	37	1.04
48058153--48058212	28	2.2	28	84	3	77	61	1	1	35	1.16

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