genome.fa.s23.2.7.7.80.10.50.1000.105.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_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   

This is table  105  of  218  ( 26060 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)
30459500--30459565	22	2.9	22	76	15	62	46	0	27	25	1.53
30460790--30460845	23	2.4	23	82	5	69	33	7	19	39	1.79
30481706--30481764	21	2.9	19	75	9	55	52	1	6	38	1.38
30482465--30482495	15	2.1	15	100	0	62	38	25	12	22	1.90
30482504--30482545	20	2.1	20	90	0	66	30	16	11	40	1.85
30485913--30485947	18	1.9	18	88	0	52	20	20	28	31	1.97
30487183--30487213	15	2.1	15	100	0	62	38	25	12	22	1.90
30487222--30487263	20	2.1	20	90	0	66	30	16	11	40	1.85
30492026--30492267	43	5.6	44	78	8	194	29	14	23	33	1.94
30492021--30492236	44	5.0	43	76	12	169	28	14	23	33	1.94
30492021--30492264	85	2.8	84	76	12	226	29	14	23	32	1.94
30502250--30502305	19	3.0	20	76	10	64	39	42	7	10	1.67
30502274--30502316	20	2.2	20	83	8	52	39	46	6	6	1.58
30503348--30503372	9	2.8	9	100	0	50	24	0	8	68	1.16
30506024--30506052	14	2.0	15	93	6	51	72	0	0	27	0.85
30506028--30506069	22	1.9	22	95	0	75	64	0	0	35	0.94
30506028--30506082	18	2.8	19	86	10	67	65	0	0	34	0.93
30506040--30506147	19	5.7	19	68	11	60	61	1	2	34	1.21
30506291--30506355	19	3.4	19	75	10	60	30	9	3	56	1.46
30506360--30506404	8	5.2	8	84	10	54	31	2	0	66	1.04
30506360--30506470	27	4.2	26	76	18	95	30	2	0	65	1.12
30506360--30506470	28	4.1	27	77	14	97	30	2	0	65	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30506360--30506468	10	12.1	8	74	17	56	30	2	0	66	1.12
30506403--30506468	8	7.5	8	80	13	60	28	3	1	66	1.15
30506360--30506524	9	18.3	9	67	20	78	31	2	1	64	1.17
30506533--30506714	93	2.0	93	85	6	253	35	11	19	32	1.88
30506853--30506884	12	2.6	12	95	5	55	34	15	0	50	1.45
30509763--30509871	34	3.3	33	79	10	132	55	1	0	42	1.17
30509841--30509869	10	3.0	10	95	5	51	51	0	0	48	1.00
30509874--30509923	11	4.6	11	73	11	50	44	0	2	54	1.11
30510515--30510555	13	3.1	14	82	10	59	48	17	17	17	1.81
30514981--30515019	16	2.4	16	82	0	51	33	25	5	35	1.78
30524107--30524295	51	3.7	50	79	12	215	26	17	25	30	1.97
30524523--30524554	16	2.0	16	93	0	55	59	0	15	25	1.36
30525588--30525650	31	2.0	31	96	0	117	47	11	9	31	1.71
30530863--30530897	18	1.9	18	88	0	52	17	17	0	65	1.27
30533492--30533558	31	2.3	27	74	18	64	38	14	11	34	1.84
30534484--30534534	23	2.2	23	96	0	93	41	0	7	50	1.31
30535332--30535363	15	2.1	15	94	0	55	50	15	12	21	1.77
30536900--30536949	13	3.7	13	76	10	55	60	2	0	38	1.09
30537903--30537929	6	4.5	6	100	0	54	14	0	0	85	0.61
30538693--30538867	85	2.1	85	92	0	287	32	10	13	42	1.79
30547957--30548277	163	2.0	163	95	0	579	27	12	24	35	1.92
30550245--30550288	21	2.1	21	91	8	72	34	20	9	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30550841--30550931	38	2.4	38	96	0	164	32	16	16	34	1.91
30551315--30551352	18	2.1	18	90	0	58	26	7	7	57	1.54
30556732--30556757	12	2.2	12	100	0	52	7	0	38	53	1.30
30562178--30562220	20	2.2	20	91	0	68	44	0	30	25	1.55
30563570--30563605	19	1.9	18	88	5	54	47	5	19	27	1.72
30570107--30570138	8	4.1	8	96	4	57	62	0	0	37	0.95
30573286--30573316	14	2.2	14	100	0	62	16	35	16	32	1.91
30575333--30575440	43	2.5	43	89	1	162	25	15	25	32	1.96
30577703--30577786	25	3.4	25	84	0	105	25	25	21	28	1.99
30583700--30583734	17	2.1	17	88	0	52	57	8	2	31	1.44
30586408--30586446	2	19.5	2	100	0	78	0	0	48	51	1.00
30587261--30587288	2	14.0	2	100	0	56	50	0	0	50	1.00
30597730--30597772	21	2.0	22	86	4	61	23	27	30	18	1.98
30603028--30603056	2	14.5	2	100	0	58	51	0	0	48	1.00
30603441--30603477	19	2.0	18	89	5	56	67	0	0	32	0.91
30606803--30606849	20	2.3	20	85	7	60	8	25	38	27	1.85
30608405--30608451	14	3.4	14	75	0	58	34	36	12	17	1.87
30611682--30611718	9	3.8	10	83	16	51	27	0	0	72	0.84
30611919--30612077	44	3.6	43	79	5	158	24	27	22	25	2.00
30611935--30612355	44	9.6	44	69	11	197	26	22	20	30	1.98
30614906--30614987	6	14.7	6	78	10	50	15	4	6	73	1.21
30614885--30614988	54	1.9	54	82	5	129	15	7	5	71	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30614923--30614994	18	4.0	18	73	10	58	13	4	5	76	1.12
30614905--30614993	12	7.8	12	75	11	64	14	5	5	74	1.19
30622335--30622426	27	3.4	27	80	0	112	35	25	18	20	1.95
30632458--30632490	17	1.9	17	100	0	66	12	30	42	15	1.83
30633044--30633085	13	3.2	13	80	10	50	16	16	16	50	1.79
30639382--30639471	30	2.9	30	73	10	85	40	15	2	42	1.59
30640168--30640260	31	3.0	30	68	14	82	43	1	18	37	1.57
30640162--30640300	61	2.3	61	89	2	217	42	3	17	36	1.67
30640636--30640674	18	2.2	18	100	0	78	25	35	12	25	1.92
30641252--30641284	17	1.9	17	93	0	57	69	3	3	24	1.16
30641598--30641656	20	3.0	19	76	18	59	28	1	1	67	1.10
30641598--30641656	19	3.1	18	79	16	57	28	1	1	67	1.10
30641777--30641828	17	3.0	17	80	11	61	21	3	1	73	1.10
30641734--30641807	24	3.1	24	73	11	62	22	4	2	70	1.17
30642580--30642608	3	9.7	3	100	0	58	31	0	0	68	0.89
30643446--30643515	37	1.9	36	91	2	113	30	18	18	32	1.95
30651149--30651295	73	2.0	73	98	0	285	31	21	15	31	1.95
30653260--30653382	9	14.1	9	83	10	148	24	8	21	44	1.81
30653271--30653300	14	2.1	14	100	0	60	13	13	26	46	1.80
30658313--30658401	37	2.4	37	92	0	151	42	14	7	34	1.75
30658444--30658519	33	2.3	33	97	0	143	43	15	5	35	1.70
30662056--30662087	16	1.9	17	93	6	57	37	21	0	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30662248--30662418	43	4.0	43	78	10	165	32	26	17	23	1.97
30662248--30662405	84	1.9	84	83	7	205	31	27	18	23	1.97
30665161--30665369	92	2.3	91	86	6	280	45	3	3	46	1.39
30665297--30665344	26	1.9	25	84	16	64	45	0	2	52	1.12
30665519--30665560	15	2.7	16	82	14	52	45	0	2	52	1.13
30665510--30665551	15	2.9	15	82	10	52	47	0	0	52	1.00
30665663--30665697	18	2.0	17	88	5	52	45	0	0	54	0.99
30665494--30665810	157	2.0	157	95	0	562	47	4	3	44	1.40
30666863--30666936	27	2.7	28	93	6	125	43	12	0	44	1.41
30666994--30667069	27	2.8	27	84	4	91	26	27	27	18	1.98
30667200--30667238	19	2.0	21	85	10	55	23	0	10	66	1.22
30667305--30667330	3	8.7	3	100	0	52	0	0	30	69	0.89
30667511--30667563	26	2.0	26	89	7	81	43	1	5	49	1.37
30667569--30667605	12	3.1	12	92	0	56	21	0	16	62	1.33
30668150--30668194	18	2.5	18	81	0	63	28	8	48	13	1.72
30673846--30673883	19	2.0	19	85	10	51	60	7	0	31	1.25
30673909--30674026	26	4.3	28	68	23	81	0	32	0	67	0.91
30673948--30674069	4	30.5	4	76	12	101	0	31	0	68	0.89
30673949--30674069	31	3.8	31	72	17	104	0	30	0	69	0.89
30674113--30674188	27	2.8	27	83	0	98	15	27	28	27	1.96
30674248--30674320	28	2.7	27	89	8	105	45	0	10	43	1.39
30675388--30675428	19	2.1	19	86	4	55	21	4	2	70	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30685885--30685922	19	2.0	19	100	0	76	42	5	0	52	1.24
30695999--30696052	27	2.0	27	100	0	108	37	11	11	40	1.76
30699512--30699664	24	6.7	23	71	14	111	52	5	5	35	1.48
30699579--30699662	44	1.9	44	82	4	107	54	4	4	35	1.42
30699512--30699664	68	2.2	69	79	7	170	52	5	5	35	1.48
30700476--30700537	25	2.4	25	81	5	70	80	4	8	6	1.01
30703587--30703655	26	2.7	24	78	12	66	55	8	4	31	1.50
30707412--30707455	18	2.4	18	92	0	70	18	6	50	25	1.71
30709954--30710027	33	2.2	33	92	0	121	45	4	2	47	1.35
30710079--30710118	13	2.9	13	82	13	53	57	0	0	42	0.98

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