genome.fa.s18.2.7.7.80.10.50.1000.43.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  43  of  208  ( 24943 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)
16493044--16493068	2	12.5	2	100	0	50	52	0	0	48	1.00
16494866--16494962	31	3.1	31	76	14	108	47	1	4	47	1.28
16500908--16500961	15	3.6	15	75	9	65	46	7	18	27	1.76
16500901--16500985	30	2.8	30	92	0	134	45	7	21	25	1.76
16505572--16505679	15	7.2	15	69	12	87	43	7	23	25	1.79
16505565--16505679	30	3.8	30	97	0	203	44	6	23	25	1.78
16512706--16512777	29	2.4	30	86	9	103	65	0	2	31	1.07
16512713--16512769	29	2.0	29	96	0	105	61	0	3	35	1.13
16513594--16513627	16	2.1	16	89	10	52	67	0	0	32	0.91
16516539--16516580	3	14.3	3	80	5	50	61	0	38	0	0.96
16535613--16535662	17	2.7	20	78	18	70	10	0	44	46	1.37
16540253--16540302	17	2.7	20	78	18	70	10	0	44	46	1.37
16570687--16571158	235	2.0	235	100	0	944	28	11	20	39	1.87
16575027--16575127	42	2.4	42	84	0	121	16	23	16	42	1.88
16575049--16575151	21	4.9	21	74	0	80	14	23	18	43	1.87
16575050--16575151	42	2.4	42	86	0	132	13	23	18	44	1.86
16575073--16575168	21	4.6	21	78	0	84	13	23	18	43	1.86
16575029--16575167	63	2.2	63	77	0	143	15	23	17	43	1.87
16579297--16579600	67	4.6	67	79	4	301	34	16	23	25	1.95
16579294--16579600	134	2.3	134	81	2	341	34	16	23	25	1.95
16579615--16579666	27	1.9	27	84	0	68	34	11	30	23	1.90
16580886--16581565	277	2.5	274	78	6	699	23	25	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16593080--16593128	18	2.7	18	93	0	80	42	22	8	26	1.81
16593080--16593128	9	5.4	9	85	0	62	42	22	8	26	1.81
16597523--16597566	10	4.4	10	82	8	54	75	2	22	0	0.92
16597530--16597567	19	2.0	20	94	5	69	76	0	23	0	0.79
16598462--16598575	38	2.9	40	68	9	99	30	14	20	34	1.93
16598460--16598594	40	3.4	39	69	7	112	28	16	22	32	1.96
16599808--16599890	43	2.0	43	95	2	150	62	2	0	34	1.08
16599822--16599890	20	3.3	20	76	11	84	62	2	0	34	1.10
16599818--16599904	21	4.0	21	74	15	72	58	3	0	37	1.15
16610969--16611044	26	2.9	26	84	9	100	65	1	0	32	1.01
16619777--16619841	14	4.5	14	73	16	53	66	0	33	0	0.92
16619978--16620159	22	8.7	21	68	16	101	32	0	12	55	1.37
16620002--16620059	19	2.9	19	84	5	71	32	0	13	53	1.40
16619978--16620164	41	4.5	40	74	16	175	32	0	12	55	1.37
16620261--16620318	22	2.9	19	71	14	53	34	1	12	51	1.49
16620113--16620339	96	2.3	98	90	4	359	33	1	12	52	1.48
16620113--16620335	49	4.5	49	84	9	301	32	1	13	52	1.48
16620113--16620387	96	2.8	95	86	6	284	32	1	13	52	1.50
16623850--16624032	49	3.7	49	87	6	271	54	13	1	30	1.46
16623850--16624032	97	1.9	100	93	3	318	54	13	1	30	1.46
16623856--16623913	22	2.9	19	76	14	62	51	12	1	34	1.49
16623953--16624000	22	2.4	19	78	18	60	56	14	2	27	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16624069--16624155	20	4.2	21	82	11	99	57	11	0	31	1.34
16624325--16624366	14	3.2	13	83	12	50	0	40	0	59	0.97
16625403--16625472	22	3.2	21	86	9	95	32	25	1	40	1.65
16625444--16625502	30	2.0	30	93	0	100	32	30	0	37	1.58
16625474--16625525	22	2.4	22	83	3	70	34	30	0	34	1.58
16625683--16625716	15	2.3	15	90	5	52	26	0	5	67	1.13
16625692--16625742	26	2.0	24	88	7	75	29	0	5	64	1.17
16627862--16628437	29	20.3	29	80	11	563	44	21	1	32	1.63
16627935--16628255	23	11.9	23	67	27	138	45	21	1	32	1.60
16628347--16628421	23	3.0	23	74	20	78	46	21	1	30	1.59
16629106--16629369	123	2.1	123	90	1	413	30	23	16	29	1.96
16637186--16637226	18	2.3	19	83	12	59	24	9	0	65	1.22
16637249--16637338	3	30.0	3	86	0	81	35	7	1	55	1.36
16639083--16639149	11	6.4	11	72	20	54	35	2	0	61	1.12
16639034--16639151	40	3.0	40	93	4	204	33	3	0	63	1.11
16647862--16647972	21	5.3	21	79	13	131	13	24	17	45	1.84
16647861--16647972	42	2.7	42	95	1	199	13	24	16	45	1.83
16653607--16653677	5	14.4	5	78	19	69	43	0	0	56	0.99
16653605--16653673	24	2.9	23	82	8	75	44	0	0	55	0.99
16653605--16653665	31	2.0	31	87	3	88	45	0	0	54	1.00
16653808--16653842	3	11.7	3	100	0	70	34	0	0	65	0.93
16653885--16653917	11	3.0	11	83	16	50	78	9	12	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16654290--16654333	23	1.9	24	90	9	74	54	2	20	22	1.56
16654871--16654929	27	2.2	28	81	9	77	23	0	30	45	1.53
16665666--16665791	43	2.9	43	82	10	150	19	18	29	32	1.96
16666816--16666892	24	3.3	24	69	7	68	33	7	18	40	1.79
16666603--16667534	325	2.9	325	93	1	1539	32	11	15	40	1.82
16666603--16667534	47	20.1	47	90	1	1427	32	11	15	40	1.82
16666603--16667534	140	6.7	141	89	1	1409	32	11	15	40	1.82
16668242--16668280	17	2.3	17	95	0	69	25	15	33	25	1.95
16670008--16670045	10	3.5	11	86	13	53	63	2	0	34	1.09
16671366--16671408	22	2.0	22	90	0	68	69	2	27	0	1.00
16672208--16672347	40	3.5	40	75	8	126	26	16	24	32	1.96
16675882--16675935	26	2.1	26	100	0	108	14	18	7	59	1.58
16681250--16681277	3	9.3	3	100	0	56	0	32	0	67	0.91
16685446--16685495	25	2.0	25	92	7	84	44	0	4	52	1.20
16685906--16685989	43	2.0	43	88	9	127	17	19	30	32	1.95
16685918--16686029	43	2.6	43	77	13	113	22	20	29	27	1.98
16689170--16689249	35	2.3	35	80	0	88	41	16	7	35	1.76
16689635--16689904	41	6.6	41	87	0	378	34	24	17	24	1.96
16689635--16689900	82	3.2	82	94	0	433	33	24	17	24	1.96
16693582--16693663	23	3.5	23	85	5	103	40	17	10	31	1.84
16693725--16693806	23	3.5	23	85	5	103	40	17	10	31	1.84
16693580--16693880	143	2.1	143	100	0	602	45	17	9	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16701649--16701689	20	2.0	21	85	4	57	12	26	19	41	1.87
16709479--16709515	19	1.9	19	94	0	65	37	18	5	37	1.74
16729061--16729085	5	5.0	5	100	0	50	0	20	20	60	1.37
16743821--16743861	21	2.0	21	85	9	57	29	19	7	43	1.78
16753111--16753263	59	2.6	59	82	6	161	46	7	13	32	1.71
16759754--16759873	60	2.0	58	96	3	222	42	8	5	44	1.56
16761689--16761869	99	1.8	99	89	0	281	27	9	14	48	1.75
16776936--16776975	21	1.9	21	90	10	64	45	2	0	52	1.14
16778235--16778324	27	3.2	29	78	15	82	23	2	0	74	0.93
16778235--16778324	26	3.2	27	78	16	78	23	2	0	74	0.93
16778179--16778330	31	5.2	29	69	17	93	25	2	0	71	1.03
16778200--16778308	26	4.0	27	69	16	73	23	2	0	72	1.03
16790876--16791031	59	2.6	59	83	5	172	47	7	13	32	1.70
16797614--16797737	61	2.0	61	100	0	248	43	8	4	43	1.55
16799583--16799763	99	1.8	99	89	0	281	27	9	14	48	1.75
16817786--16817901	46	2.6	45	89	4	173	26	24	16	32	1.96
16823678--16823716	20	2.0	20	89	0	60	56	0	2	41	1.13
16827724--16827867	75	1.9	75	81	5	175	23	25	22	28	1.99
16828428--16829328	441	2.0	441	99	0	1777	26	21	21	30	1.98
16829948--16829993	15	3.1	15	84	9	58	28	0	4	67	1.10
16831026--16831057	16	2.0	17	88	11	50	37	6	0	56	1.25
16831166--16831227	32	1.9	32	86	0	88	48	3	6	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16831448--16831503	17	3.2	17	73	11	60	62	0	5	32	1.18
16837656--16837686	11	2.8	11	90	0	53	32	0	0	67	0.91
16843742--16843789	24	2.0	24	87	0	69	62	6	29	2	1.31
16855572--16855609	6	6.3	6	93	0	67	2	0	60	36	1.11
16856116--16856159	18	2.4	18	82	10	54	56	0	4	38	1.20
16856806--16856839	16	2.1	16	88	0	50	58	2	0	38	1.13
16860177--16860203	14	1.9	14	100	0	54	29	7	37	25	1.83
16863682--16863744	20	3.2	20	78	13	76	57	1	0	41	1.08
16863682--16863737	18	3.0	18	84	10	60	55	1	0	42	1.10
16865432--16865470	11	3.5	11	86	6	51	0	17	0	82	0.68

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