genome.fa.s20.2.7.7.80.10.50.1000.192.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  192  of  199  ( 23844 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)
55587511--55587544	16	2.1	16	100	0	68	76	0	0	23	0.79
55588962--55589005	20	2.2	20	100	0	88	59	9	27	4	1.48
55589080--55589109	12	2.5	12	94	0	51	43	20	3	33	1.68
55590858--55590892	13	2.7	13	86	0	52	45	11	5	37	1.64
55593671--55593845	41	4.3	40	77	8	147	32	26	20	21	1.98
55601996--55602170	41	4.3	40	77	8	147	32	26	20	21	1.98
55603861--55604053	50	3.9	50	87	0	269	26	22	30	21	1.99
55611653--55611717	21	3.2	19	75	14	58	41	4	6	47	1.49
55611791--55611844	21	2.5	22	82	8	67	53	0	0	46	1.00
55611883--55611948	31	2.2	30	83	8	80	45	1	1	51	1.19
55619730--55619794	27	2.4	28	82	7	80	61	1	0	36	1.05
55620948--55620976	14	2.0	15	93	6	51	37	0	0	62	0.96
55627155--55627194	20	2.0	21	85	5	55	20	7	10	62	1.50
55627189--55627255	32	2.1	32	83	2	82	37	16	11	34	1.85
55627799--55627830	13	2.3	15	89	10	50	75	0	0	25	0.81
55630472--55630585	32	3.2	33	79	18	124	63	0	2	34	1.09
55630489--55630530	20	2.2	19	91	8	68	66	0	2	30	1.04
55630516--55630596	11	7.4	11	70	24	55	61	0	3	34	1.14
55630476--55630605	42	3.1	42	78	16	135	64	0	3	32	1.09
55630539--55630572	17	2.0	17	94	0	59	67	0	0	32	0.91
55630498--55630614	41	2.8	41	89	3	182	64	0	3	32	1.10
55633742--55633779	19	2.0	19	94	0	67	50	10	7	31	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55633744--55633787	19	2.3	19	88	4	61	52	11	9	27	1.67
55633771--55633808	14	2.7	14	91	0	58	36	18	7	36	1.80
55636567--55636636	36	1.9	36	82	8	88	52	5	5	35	1.49
55644517--55644585	32	2.2	32	97	2	131	49	11	7	31	1.66
55646090--55646182	26	3.6	25	70	9	71	65	3	3	27	1.23
55654315--55654349	17	2.0	18	88	5	54	60	0	5	34	1.21
55657346--55657387	21	2.1	19	86	8	57	64	0	4	30	1.14
55661169--55661205	19	2.0	20	84	10	51	37	0	8	54	1.30
55665044--55665110	29	2.3	30	86	2	91	28	1	7	62	1.31
55668501--55668542	21	2.0	22	90	4	68	42	0	2	54	1.13
55671343--55671380	19	2.0	19	94	0	67	34	15	13	36	1.87
55674102--55675388	642	2.0	642	100	0	2574	31	12	15	40	1.85
55676092--55676125	18	1.9	18	94	5	61	29	2	0	67	1.05
55676759--55676790	5	6.4	5	100	0	64	59	18	0	21	1.38
55680028--55680075	5	9.6	5	100	0	96	60	0	0	39	0.97
55681675--55681714	17	2.4	17	95	0	71	35	10	15	40	1.80
55685671--55685856	41	4.5	41	93	2	277	29	23	19	27	1.98
55693292--55693487	41	4.8	41	90	4	265	29	23	19	27	1.98
55693250--55693487	82	2.9	81	82	7	268	27	23	20	28	1.99
55696262--55696291	15	1.9	16	93	6	53	36	0	20	43	1.52
55696607--55696679	25	2.9	25	85	0	101	17	28	20	32	1.96
55697215--55699088	627	3.0	627	99	0	3658	24	16	25	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55700342--55700368	11	2.5	11	100	0	54	7	40	37	14	1.74
55703345--55703410	24	2.7	26	76	21	72	30	4	4	60	1.37
55703617--55703653	18	2.0	19	85	15	51	59	5	2	32	1.34
55703694--55703782	41	2.1	41	85	12	117	58	11	6	23	1.56
55707672--55707707	16	2.2	16	90	9	56	25	2	0	72	0.98
55710184--55710344	85	1.9	86	85	3	227	32	20	18	28	1.96
55712254--55712331	29	2.6	30	83	2	104	28	14	19	38	1.90
55719260--55719308	20	2.5	20	83	3	55	34	4	0	61	1.15
55721695--55721736	20	2.1	20	86	8	59	21	19	14	45	1.85
55721723--55721828	42	2.5	42	84	7	135	16	20	18	43	1.88
55727767--55727796	14	2.1	14	100	0	60	23	20	0	56	1.42
55728970--55729010	21	2.0	20	85	4	55	48	7	0	43	1.30
55733859--55733899	21	2.0	21	85	0	55	31	21	26	19	1.97
55737886--55737949	17	3.6	17	70	15	58	28	12	14	45	1.81
55737878--55737948	36	2.0	36	91	0	115	28	12	14	45	1.81
55738272--55738305	16	2.1	16	100	0	68	23	0	23	52	1.47
55743066--55743260	90	2.2	89	82	6	234	27	19	11	41	1.86
55743104--55743266	45	3.7	44	81	5	184	26	20	11	41	1.85
55743103--55743311	89	2.3	90	79	8	228	25	19	13	41	1.88
55757258--55757287	3	10.0	3	100	0	60	33	0	33	33	1.58
55760326--55760354	6	4.8	6	100	0	58	0	13	0	86	0.58
55761782--55761937	77	2.0	77	90	2	242	25	18	17	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55772919--55772962	11	3.9	11	79	5	52	63	2	0	34	1.07
55777402--55777451	26	2.0	25	84	11	66	32	10	28	30	1.89
55781484--55781527	20	2.2	20	100	0	88	25	25	15	34	1.95
55787827--55787892	31	2.0	32	82	8	80	37	9	6	46	1.60
55795495--55795710	52	4.0	53	78	11	217	42	1	31	25	1.66
55797169--55797214	16	2.9	16	80	6	58	47	0	2	50	1.13
55798342--55798403	21	2.9	21	73	4	61	40	0	6	53	1.27
55801575--55801615	21	2.0	21	85	0	55	19	26	21	31	1.97
55804907--55804968	19	3.0	20	76	17	63	35	0	0	64	0.94
55815213--55815247	18	1.9	18	88	0	52	28	2	5	62	1.32
55825453--55825487	17	2.0	18	88	5	54	57	5	0	37	1.23
55825914--55825953	22	1.9	21	85	10	55	37	7	0	55	1.29
55831486--55831527	21	2.0	22	85	4	59	59	2	14	23	1.47
55832766--55832822	19	2.9	20	80	12	57	66	5	0	28	1.13
55832766--55832810	21	2.2	19	84	11	54	66	4	0	28	1.11
55838457--55838484	13	2.2	13	100	0	56	71	0	14	14	1.15
55839497--55839571	26	2.9	26	84	4	71	18	22	22	36	1.95
55842699--55842732	17	1.9	17	88	5	50	44	5	5	44	1.52
55842794--55842826	11	3.1	11	86	4	50	69	18	0	12	1.18
55850315--55850344	2	15.5	2	93	6	53	50	0	0	50	1.00
55850318--55850343	13	2.0	13	100	0	52	46	0	0	53	1.00
55850316--55850344	15	1.9	15	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55855215--55855275	32	2.0	30	87	12	88	52	1	0	45	1.10
55859902--55859946	18	2.6	17	86	6	56	24	0	0	75	0.80
55861672--55861811	43	3.3	43	77	6	113	22	22	20	34	1.97
55863823--55863863	18	2.3	18	87	8	57	14	14	4	65	1.42
55869763--55869856	48	2.0	48	87	8	138	18	13	27	40	1.88
55872327--55872845	132	3.9	132	84	4	582	32	15	15	36	1.89
55872327--55872993	264	2.6	253	82	5	769	32	15	15	37	1.89
55872729--55872961	116	2.0	116	84	1	306	32	15	14	37	1.88
55880909--55881173	46	5.7	46	83	9	260	39	17	15	27	1.90
55880908--55881173	116	2.3	116	92	1	446	39	17	15	27	1.90
55880908--55881175	70	3.8	67	79	12	258	39	17	14	27	1.90
55881321--55881358	18	2.1	18	100	0	76	44	15	0	39	1.47
55881865--55882014	41	3.7	40	80	7	124	34	26	14	24	1.94
55885249--55885281	12	2.8	12	100	0	66	15	0	0	84	0.61
55885237--55885281	17	2.6	17	80	13	56	13	2	2	82	0.86
55886107--55886165	24	2.4	24	80	11	66	42	10	1	45	1.48
55886119--55886168	26	1.9	26	87	0	73	42	12	2	44	1.53
55886234--55886282	22	2.2	21	82	7	62	28	6	2	63	1.30
55886243--55886293	22	2.3	22	80	16	61	37	5	0	56	1.23
55888904--55888945	20	2.1	20	100	0	84	28	21	9	40	1.84
55891261--55891331	10	7.2	10	76	17	60	78	1	19	0	0.82
55891286--55891332	5	9.8	5	80	15	55	80	0	19	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55891265--55891333	19	3.8	18	80	16	81	79	1	18	0	0.80
55891285--55891324	13	2.9	14	88	7	64	82	0	17	0	0.67
55891602--55891889	97	3.0	97	91	2	445	27	15	8	47	1.74
55892667--55892758	44	2.1	44	83	0	112	27	20	26	26	1.99
55892955--55893059	44	2.4	44	80	3	113	35	19	16	29	1.93
55893101--55893381	139	2.0	137	84	2	366	30	19	20	29	1.97
55894842--55894878	16	2.3	16	100	0	74	13	10	32	43	1.79
55895125--55895170	3	15.0	3	86	13	67	32	2	2	63	1.19
55895241--55895299	24	2.4	24	80	11	66	42	10	1	45	1.48
55895240--55895302	26	2.4	27	81	5	76	41	11	1	46	1.49

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