genome.fa.s16.2.7.7.80.10.50.1000.43.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  43  of  175  ( 20966 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)
12169301--12169329	9	3.0	10	90	10	51	20	20	0	58	1.39
12172466--12172533	33	2.0	35	88	11	106	48	1	1	48	1.19
12173046--12173106	31	1.9	32	86	3	88	42	3	8	45	1.50
12174933--12175058	62	2.0	61	84	1	162	18	27	27	26	1.98
12178635--12178697	30	2.1	31	93	3	110	28	11	9	50	1.69
12180400--12180438	19	2.0	21	85	10	55	69	5	10	15	1.34
12180603--12180647	23	2.0	23	86	4	65	48	15	2	33	1.57
12181995--12182041	23	2.0	23	83	8	58	55	6	8	29	1.55
12188100--12188205	3	35.0	3	85	1	86	33	8	2	55	1.45
12192499--12192544	17	2.8	18	84	15	64	28	41	30	0	1.56
12195326--12195364	20	2.0	19	85	5	51	61	2	0	35	1.10
12195336--12195388	26	2.0	26	89	7	81	58	3	0	37	1.16
12195336--12195388	24	2.1	26	83	13	67	58	3	0	37	1.16
12198156--12198276	17	7.0	16	71	17	57	44	14	11	29	1.80
12198214--12198298	34	2.5	35	78	5	93	43	14	7	35	1.72
12198231--12198296	17	3.9	17	83	0	87	43	13	6	36	1.69
12198918--12198984	18	3.7	18	79	0	71	46	20	2	29	1.66
12205274--12205318	22	2.1	21	83	4	54	44	0	13	42	1.43
12214217--12214275	19	3.1	18	79	16	57	20	3	3	72	1.13
12214216--12214273	16	3.9	15	73	15	57	18	3	3	74	1.11
12225645--12225742	43	2.3	43	83	0	124	29	17	26	26	1.97
12236968--12237013	22	2.1	22	84	8	58	76	0	21	2	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12237848--12237884	13	2.8	13	91	0	56	72	0	16	10	1.10
12237859--12237887	7	4.3	7	91	8	51	65	0	17	17	1.27
12239161--12240116	128	7.5	128	89	2	1361	31	19	23	25	1.98
12240272--12240792	44	11.9	43	69	11	225	32	19	19	28	1.96
12240272--12240925	219	3.0	219	90	2	1019	32	18	19	28	1.96
12241282--12241321	16	2.5	16	84	11	55	45	37	2	15	1.59
12244707--12244745	20	1.9	20	85	15	53	43	0	17	38	1.50
12245531--12245566	18	1.9	18	88	5	54	58	2	0	38	1.13
12245555--12245614	18	3.2	19	76	23	56	51	0	0	48	1.00
12260227--12260277	22	2.4	21	76	3	57	29	1	0	68	1.00
12264979--12265039	30	2.0	30	100	0	122	34	29	9	26	1.88
12281916--12281955	18	2.2	19	95	4	73	42	0	5	52	1.23
12303355--12303414	16	3.7	16	71	20	61	33	25	11	30	1.91
12308780--12308831	24	2.2	24	92	0	86	51	7	3	36	1.49
12310972--12311021	21	2.4	21	100	0	100	10	12	16	62	1.55
12311646--12311872	35	6.3	35	83	6	267	25	24	15	34	1.95
12311673--12311886	73	2.9	73	90	0	329	25	23	15	35	1.94
12319287--12319329	19	2.1	21	87	8	63	58	0	4	37	1.19
12319293--12319329	10	3.5	11	82	17	51	54	0	5	40	1.24
12319340--12319412	22	3.7	20	82	12	89	61	2	5	30	1.32
12319482--12319519	20	1.9	20	88	0	58	71	2	0	26	1.00
12329928--12329957	10	3.0	10	90	0	51	86	0	13	0	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12329928--12329962	17	2.1	17	94	5	63	85	0	14	0	0.59
12329916--12329957	20	2.0	21	90	4	68	80	4	14	0	0.86
12329916--12329972	20	2.9	19	75	10	62	75	7	17	0	1.02
12331015--12331248	44	5.1	44	69	17	134	28	22	17	31	1.97
12330971--12331293	142	2.3	142	95	0	574	28	21	17	32	1.96
12331534--12332300	87	8.8	87	91	0	1165	24	23	22	29	1.99
12332104--12332241	43	3.2	43	70	17	140	24	19	24	31	1.98
12333516--12333568	20	2.9	18	83	10	65	15	13	0	71	1.14
12333960--12334011	27	1.9	27	84	7	70	9	9	9	71	1.32
12333928--12334034	33	3.3	33	76	13	107	9	9	9	71	1.30
12339831--12339870	21	2.0	21	90	5	64	77	5	15	2	1.04
12339830--12339877	21	2.3	21	82	7	62	79	4	14	2	0.98
12339844--12339877	10	3.3	10	88	8	50	85	0	11	2	0.71
12340527--12340570	18	2.4	19	92	3	72	34	2	0	63	1.07
12340534--12340613	29	2.8	29	81	10	85	42	1	0	56	1.07
12344348--12344692	40	8.6	40	91	1	539	23	27	21	27	1.99
12351744--12352088	40	8.6	40	92	1	566	23	28	20	27	1.99
12359605--12359878	141	1.9	141	99	0	539	22	25	25	25	2.00
12360123--12360173	23	2.2	23	89	6	77	41	17	11	29	1.85
12385383--12385433	23	2.2	24	82	3	59	33	13	25	27	1.94
12389318--12389357	21	1.9	21	85	10	55	25	27	20	27	1.99
12393370--12393463	40	2.3	40	83	7	111	40	27	17	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12396311--12396385	35	2.2	34	90	9	125	21	28	20	30	1.98
12403344--12403405	26	2.4	26	88	0	88	38	14	11	35	1.82
12411616--12411655	19	2.1	19	100	0	80	42	0	5	52	1.23
12414165--12414210	23	2.0	23	86	0	65	30	8	13	47	1.72
12419370--12419398	8	3.6	8	100	0	58	24	0	0	75	0.80
12420144--12420190	24	2.0	24	82	0	58	48	4	0	46	1.21
12428174--12428207	12	2.8	12	95	0	59	29	44	17	8	1.79
12443839--12444013	27	6.5	27	81	4	183	41	17	24	17	1.90
12443818--12443986	54	3.1	55	80	5	157	39	18	23	18	1.92
12443839--12444013	81	2.2	81	82	4	210	41	17	24	17	1.90
12444101--12444140	20	2.0	21	85	14	57	32	10	12	45	1.75
12444185--12444256	26	2.8	26	74	4	74	22	25	22	30	1.99
12444367--12444447	28	2.9	28	90	0	126	23	22	23	30	1.99
12445713--12445755	11	4.0	11	80	17	54	81	0	18	0	0.69
12445711--12445754	21	2.1	21	87	8	63	81	0	18	0	0.68
12445712--12445752	6	7.3	6	81	13	52	85	0	14	0	0.60
12445711--12445752	17	2.5	17	85	14	61	83	0	16	0	0.65
12445712--12445754	15	2.9	14	83	10	50	83	0	16	0	0.64
12445734--12445804	34	2.1	34	84	2	90	56	9	18	15	1.66
12447902--12447935	18	2.0	17	88	11	52	26	5	2	64	1.30
12448721--12448796	29	2.6	29	76	0	80	44	15	19	19	1.86
12448753--12449108	188	1.9	188	83	3	466	36	18	13	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12463394--12463426	8	4.0	8	96	4	57	36	0	24	39	1.56
12469658--12469700	9	4.7	9	77	5	50	34	2	41	20	1.65
12474290--12474379	41	2.2	41	89	0	144	44	32	4	18	1.70
12474300--12474367	21	3.3	21	69	19	70	45	26	4	23	1.71
12474434--12474511	41	1.9	39	87	5	111	16	1	34	47	1.55
12474420--12474503	20	4.2	20	69	14	57	15	1	35	47	1.53
12474452--12474513	7	9.0	7	85	3	63	19	0	33	46	1.50
12474457--12474537	34	2.3	35	79	8	85	18	1	35	44	1.58
12474450--12474531	41	2.0	41	83	4	103	19	1	34	45	1.58
12474434--12474556	48	2.6	48	78	10	121	17	4	34	43	1.69
12478160--12478190	14	2.2	14	94	0	53	38	9	6	45	1.63
12478839--12478868	12	2.5	12	100	0	60	16	43	33	6	1.74
12478989--12479083	33	2.9	33	85	3	129	18	43	14	23	1.87
12479391--12479419	14	2.1	14	100	0	58	41	0	6	51	1.28
12479362--12479591	62	3.7	62	95	0	424	47	9	6	36	1.62
12479515--12479543	14	2.1	14	100	0	58	41	0	6	51	1.28
12482609--12483245	218	3.0	210	87	5	940	38	15	11	34	1.84
12487112--12487172	30	2.0	30	100	0	122	22	6	19	50	1.70
12495718--12495841	60	2.1	60	89	3	187	21	16	12	49	1.79
12496048--12496096	17	2.7	18	84	9	64	14	4	2	79	0.97
12498174--12498373	78	2.6	75	74	12	183	37	4	16	42	1.68
12498193--12498336	78	1.8	78	82	8	186	40	4	13	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12498767--12498987	41	5.4	41	85	4	302	28	19	28	23	1.98
12498767--12498996	82	2.8	82	90	0	352	29	19	28	22	1.98
12498767--12498995	123	1.9	123	87	1	343	29	19	28	22	1.98
12506202--12506401	78	2.6	76	76	10	194	37	4	16	42	1.69
12506796--12507019	41	5.5	41	82	4	274	29	19	25	25	1.98
12506796--12507027	82	2.8	82	84	2	331	30	18	25	25	1.98
12513499--12513552	27	2.0	27	88	0	81	46	9	9	35	1.68
12535940--12535983	21	2.1	21	95	0	79	47	29	6	15	1.72
12542272--12542310	20	2.0	20	89	0	60	35	7	5	51	1.53
12558826--12558864	16	2.5	15	84	12	51	41	0	0	58	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