genome.fa.s23.2.7.7.80.10.50.1000.33.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  33  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)
10305392--10305432	21	2.0	21	95	0	73	58	7	0	34	1.26
10305999--10306024	7	3.7	7	100	0	52	42	26	0	30	1.56
10317351--10317410	29	2.1	29	100	0	120	51	23	0	25	1.48
10318363--10318423	30	2.0	30	84	6	79	27	4	24	42	1.75
10325170--10325199	15	1.9	16	93	6	53	33	46	0	20	1.51
10332002--10332186	41	4.5	41	92	2	293	30	20	26	22	1.98
10332002--10332186	81	2.3	82	89	3	293	30	20	26	22	1.98
10339180--10339327	73	2.0	73	96	0	269	23	17	16	42	1.88
10344482--10344654	84	2.1	84	98	0	337	29	10	15	44	1.80
10354775--10354984	102	2.1	102	94	0	366	40	7	14	37	1.74
10355587--10355645	31	1.9	31	100	0	118	30	13	20	35	1.91
10367573--10367661	26	3.7	23	72	18	74	57	8	4	29	1.49
10367627--10367722	25	4.0	24	77	10	97	50	7	7	35	1.58
10367578--10367709	47	2.7	48	88	6	178	53	9	6	30	1.58
10367616--10367684	24	2.9	24	72	10	70	49	13	10	27	1.73
10367613--10367689	23	3.3	23	71	10	75	46	12	11	28	1.77
10367632--10367732	24	4.1	25	76	11	84	50	6	7	34	1.58
10367727--10367780	3	18.0	3	84	0	72	68	3	0	27	1.06
10367728--10367780	21	2.5	21	93	0	88	69	3	0	26	1.05
10381932--10381986	21	2.8	19	86	10	83	34	10	16	38	1.84
10381935--10382012	21	3.7	21	76	17	81	34	8	17	38	1.82
10381932--10381989	19	2.9	19	87	9	89	34	10	18	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10382231--10382311	27	3.0	28	83	15	109	64	0	2	33	1.07
10382220--10382311	27	3.2	27	84	9	103	63	0	2	34	1.07
10382318--10382354	5	7.2	5	96	3	65	0	40	56	2	1.13
10389307--10390331	88	11.6	88	88	1	1385	25	22	26	25	2.00
10389310--10390240	44	21.2	44	65	8	381	25	22	26	25	2.00
10389307--10390515	88	13.7	88	86	3	667	26	21	26	25	2.00
10390296--10390638	44	7.8	44	85	3	413	30	15	25	29	1.96
10390294--10390668	177	2.1	176	91	2	599	30	15	25	29	1.96
10390296--10390666	131	2.8	133	87	1	487	30	15	25	28	1.96
10390296--10390680	175	2.2	177	90	2	562	30	15	24	29	1.96
10391012--10391108	19	4.7	21	77	15	96	35	8	17	39	1.80
10391011--10391082	19	3.7	19	87	7	108	34	9	16	38	1.82
10400437--10400489	19	3.0	17	86	10	79	54	0	0	45	0.99
10401528--10401565	20	1.9	20	84	10	51	7	7	5	78	1.07
10401529--10401608	28	2.7	29	75	17	76	10	6	7	76	1.16
10401561--10401605	23	2.0	23	86	8	65	11	6	8	73	1.25
10401586--10401610	12	2.1	12	100	0	50	16	0	8	76	1.02
10401605--10401715	33	3.4	32	82	7	100	39	0	0	59	1.04
10401628--10401679	23	2.4	22	87	9	72	40	0	0	59	0.97
10401626--10401715	33	2.8	33	84	5	112	42	0	0	57	0.98
10401807--10401845	16	2.4	16	95	0	69	38	2	0	58	1.12
10402535--10402614	25	3.1	25	90	3	124	71	2	0	26	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10402667--10402714	16	3.0	15	79	11	51	77	0	2	20	0.88
10402669--10402714	23	2.0	24	86	4	67	78	0	2	19	0.86
10403159--10403249	45	2.0	45	100	0	182	36	26	15	21	1.93
10404831--10404994	44	3.9	44	83	6	180	28	23	20	28	1.99
10404877--10404997	38	3.0	37	82	11	125	27	23	19	29	1.98
10406372--10406412	21	2.0	20	85	4	55	2	24	0	73	0.96
10406372--10406412	20	2.0	21	86	13	59	2	24	0	73	0.96
10413326--10413383	25	2.2	27	90	9	93	68	3	0	27	1.05
10413438--10413483	16	2.9	15	87	9	56	73	0	2	23	0.94
10413437--10413483	23	2.0	24	87	4	69	74	0	2	23	0.93
10416474--10416707	86	2.7	86	89	5	343	32	29	18	19	1.96
10416527--10416708	43	4.2	43	94	0	328	31	29	19	19	1.96
10419993--10420073	24	3.4	23	72	16	67	35	20	27	16	1.94
10432670--10432697	14	2.0	14	100	0	56	35	21	14	28	1.92
10434838--10434889	26	2.0	27	81	11	63	61	7	0	30	1.24
10435392--10435419	8	3.5	8	100	0	56	25	0	28	46	1.53
10440935--10441516	291	2.0	291	98	0	1128	29	15	24	30	1.96
10443726--10443774	6	8.3	6	84	13	50	40	0	0	59	0.98
10443725--10443781	28	2.0	28	87	12	82	40	0	0	59	0.97
10449854--10449885	10	3.1	10	95	4	55	43	18	9	28	1.81
10459107--10459180	29	2.5	30	80	14	91	44	13	14	27	1.83
10471993--10472050	22	2.7	21	72	20	57	58	5	0	36	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10472429--10472494	31	2.2	31	86	5	91	63	4	1	30	1.23
10472615--10472676	32	1.9	32	90	6	99	64	6	8	20	1.43
10476188--10476233	19	2.3	21	78	14	53	32	0	2	65	1.05
10489926--10489950	2	12.5	2	100	0	50	52	0	0	48	1.00
10490578--10490616	20	2.0	20	85	10	53	46	0	2	51	1.14
10490604--10490644	17	2.3	18	84	12	50	53	0	2	43	1.13
10490621--10490692	27	2.7	26	81	12	83	51	0	2	45	1.15
10491890--10491944	25	2.2	25	84	12	69	61	1	0	36	1.06
10491890--10491944	26	2.2	24	83	6	65	61	1	0	36	1.06
10509284--10509328	16	2.8	16	82	3	54	75	0	6	17	1.01
10510432--10510466	17	2.1	17	89	10	54	77	2	0	20	0.90
10511423--10511479	25	2.3	25	87	0	87	36	21	24	17	1.94
10512466--10512512	23	2.0	23	91	0	76	42	10	4	42	1.59
10517728--10517776	24	2.0	24	100	0	98	38	4	20	36	1.72
10523990--10524020	16	1.9	16	100	0	62	51	6	12	29	1.65
10526170--10526199	11	2.6	11	94	5	51	60	0	3	36	1.14
10526789--10526827	17	2.3	17	90	0	60	17	15	0	66	1.25
10529301--10529361	29	2.1	28	81	3	68	24	11	18	45	1.82
10529575--10529625	22	2.3	22	89	0	84	27	29	0	43	1.55
10533185--10533533	123	2.8	125	92	3	607	32	21	16	29	1.95
10533729--10533789	29	2.1	28	81	3	77	44	16	13	26	1.84
10534238--10534267	15	2.0	15	100	0	60	26	0	20	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10539843--10539883	21	2.0	21	90	0	64	19	29	21	29	1.98
10546609--10546651	15	2.9	14	83	12	52	72	4	2	20	1.14
10547436--10547530	32	3.0	32	98	1	183	43	15	9	31	1.79
10548875--10548973	9	10.3	10	74	13	59	70	0	4	25	1.04
10548883--10548973	10	9.1	10	72	10	62	71	0	4	24	1.04
10548913--10548981	29	2.4	29	82	4	95	66	0	2	30	1.06
10548914--10548974	28	2.2	28	91	5	97	68	0	3	27	1.05
10549239--10549296	19	3.2	19	77	15	61	43	1	0	55	1.10
10554436--10554517	22	3.6	23	74	14	62	4	18	3	73	1.17
10555130--10555305	64	2.8	64	87	2	230	29	20	30	19	1.97
10560498--10560569	23	3.2	23	90	2	119	30	25	22	22	1.99
10560656--10560684	8	3.6	8	100	0	58	34	27	13	24	1.93
10560803--10560841	18	2.2	17	86	13	53	46	20	0	33	1.51
10570841--10570903	26	2.4	27	74	10	69	33	12	12	41	1.81
10582452--10582476	10	2.5	10	100	0	50	16	8	12	64	1.49
10584049--10584146	49	2.0	50	87	2	144	45	7	16	30	1.74
10611617--10611687	36	2.0	35	86	2	97	25	19	18	36	1.94
10613441--10613523	25	3.3	25	86	6	123	30	24	21	24	1.99
10613438--10613548	50	2.2	50	83	3	143	31	23	20	24	1.98
10614203--10614397	45	4.3	45	90	0	291	24	18	15	41	1.90
10614729--10614783	20	2.8	20	88	0	83	29	16	27	27	1.97
10624804--10625297	244	2.0	243	93	1	846	24	16	19	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10633345--10633394	17	2.7	20	78	18	70	10	0	44	46	1.37
10637984--10638033	17	2.7	20	78	18	70	10	0	44	46	1.37
10641591--10641658	31	2.2	31	89	0	109	36	10	19	33	1.85
10642826--10642857	16	2.0	16	100	0	64	37	6	6	50	1.53
10643268--10643323	29	1.9	29	92	0	94	32	28	10	28	1.90
10646661--10646699	18	2.1	19	85	4	53	69	5	0	25	1.09
10646762--10646827	27	2.4	27	89	0	105	24	28	36	10	1.89
10646858--10647157	150	2.0	147	90	5	460	31	10	7	50	1.64
10647331--10647396	27	2.4	27	92	0	114	13	39	24	22	1.90
10654002--10654031	15	2.0	15	93	0	51	56	0	0	43	0.99

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