genome.fa.s21.2.7.7.80.10.50.1000.13.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_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   

This is table  13  of  211  ( 25274 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)
4394419--4394468	21	2.3	21	80	12	57	62	4	0	34	1.14
4400084--4400113	14	2.1	14	100	0	60	23	0	26	50	1.50
4402798--4402836	14	2.5	16	84	15	55	35	2	0	61	1.10
4406935--4407162	41	5.6	41	94	1	395	20	29	20	29	1.98
4406928--4407190	123	2.1	123	87	4	388	23	28	19	27	1.99
4408866--4408924	28	2.0	31	83	9	79	50	5	0	44	1.24
4410999--4411029	6	5.2	6	92	0	53	38	0	0	61	0.96
4410986--4411030	18	2.5	17	89	7	63	42	0	2	55	1.12
4411129--4411219	38	2.3	39	83	11	105	41	2	3	52	1.30
4413081--4413120	2	20.0	2	100	0	80	50	50	0	0	1.00
4425585--4425645	21	2.9	21	83	11	72	47	4	6	40	1.51
4425580--4425632	21	2.6	21	88	8	74	45	3	5	45	1.45
4425976--4426665	344	2.0	344	98	0	1344	35	16	15	32	1.90
4434781--4434831	14	3.7	14	75	12	52	49	5	3	41	1.45
4434813--4434845	14	2.4	14	90	5	50	54	0	3	42	1.15
4435803--4435843	12	3.3	12	86	3	55	82	7	9	0	0.83
4435915--4435942	3	9.3	3	100	0	56	32	0	0	67	0.91
4441956--4442021	20	3.4	19	76	17	64	65	3	4	27	1.27
4441953--4442029	18	4.2	18	73	16	68	67	2	3	25	1.21
4442232--4442289	23	2.5	23	73	15	57	46	1	1	50	1.22
4443171--4443237	17	4.0	17	79	7	75	50	8	10	29	1.67
4443119--4443441	18	18.8	18	66	24	82	50	9	13	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4443238--4443367	64	2.1	64	85	9	180	57	7	13	21	1.60
4443394--4443440	17	2.7	18	75	15	53	42	12	17	27	1.85
4444782--4444853	30	2.4	30	81	9	76	40	8	19	31	1.81
4444811--4444943	30	4.4	30	73	7	101	41	6	18	34	1.75
4445284--4446543	78	16.3	78	88	4	1686	34	20	17	27	1.95
4445284--4446543	235	5.4	232	87	4	1631	34	20	17	27	1.95
4447937--4448083	41	3.5	42	83	6	160	25	25	20	28	1.99
4449045--4449088	4	11.0	4	100	0	88	50	25	0	25	1.50
4450081--4450113	11	3.0	11	100	0	66	45	0	0	54	0.99
4454879--4454903	9	2.8	9	100	0	50	8	44	0	48	1.32
4458664--4458860	18	11.2	18	69	20	89	47	10	13	28	1.76
4458608--4458774	63	2.6	64	85	7	218	48	10	13	26	1.76
4458538--4458860	17	17.8	18	67	21	117	45	10	14	29	1.78
4459318--4459375	27	2.2	27	81	3	73	10	27	37	24	1.88
4459682--4459717	17	2.1	18	94	5	65	58	0	0	41	0.98
4459667--4459758	41	2.4	39	85	12	127	63	0	3	33	1.11
4459980--4460018	15	2.5	15	87	4	51	0	10	17	71	1.12
4460151--4460236	6	13.8	6	73	20	54	2	19	0	77	0.87
4460151--4460243	21	4.4	21	79	12	102	3	20	0	76	0.93
4460151--4460242	48	1.9	47	85	10	125	3	19	0	77	0.91
4460156--4460236	27	3.1	27	79	15	98	2	19	0	77	0.88
4460443--4460487	19	2.3	19	84	3	54	6	13	53	26	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460845--4460905	32	1.9	32	82	0	77	47	1	19	31	1.59
4461975--4462119	75	1.9	75	81	5	177	47	13	22	16	1.81
4464503--4464602	46	2.2	45	85	1	137	40	18	19	23	1.92
4465999--4466048	9	5.6	9	77	15	50	54	2	2	42	1.23
4475151--4475211	23	2.6	23	92	2	95	24	44	3	27	1.69
4478229--4478476	50	4.8	50	85	5	302	20	29	23	26	1.99
4478228--4478476	100	2.4	104	87	7	348	20	29	23	26	1.99
4478571--4478602	13	2.5	13	94	0	55	56	12	0	31	1.37
4478814--4478870	30	1.9	30	88	0	87	31	22	3	42	1.71
4503687--4503753	26	2.5	28	85	9	102	43	11	14	29	1.82
4520453--4520729	44	6.4	44	75	6	235	26	21	23	29	1.99
4520448--4520603	85	1.8	85	81	0	195	26	21	22	29	1.99
4520453--4520735	129	2.2	129	89	0	422	26	20	23	29	1.99
4520488--4520729	85	2.8	88	77	7	257	27	22	21	28	1.99
4526838--4527068	126	1.8	124	82	3	293	35	15	14	34	1.88
4527538--4527588	25	2.0	25	100	0	102	45	7	11	35	1.70
4537787--4537827	5	8.4	5	79	15	50	56	0	0	43	0.99
4537780--4537842	21	3.0	21	79	13	67	53	0	0	46	1.00
4538641--4538721	33	2.5	33	77	0	81	22	25	19	32	1.98
4538746--4538855	33	3.3	33	75	7	87	27	23	15	33	1.95
4544745--4544796	23	2.3	21	81	12	59	63	21	3	11	1.43
4545939--4545993	15	3.7	15	76	11	60	23	5	0	70	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4546555--4546593	12	3.2	13	89	7	55	23	10	0	66	1.22
4552217--4552265	23	2.1	24	85	7	66	48	0	4	46	1.20
4552495--4552544	20	2.4	21	83	3	75	24	14	20	42	1.88
4555554--4555653	41	2.4	41	93	0	164	33	25	20	22	1.97
4563398--4563500	41	2.5	41	91	0	161	32	24	20	23	1.98
4568152--4568208	30	1.9	30	82	7	71	19	29	31	19	1.96
4570664--4570695	8	3.8	9	88	12	50	43	0	0	56	0.99
4575236--4575313	6	12.3	6	74	15	68	2	17	3	75	1.07
4575233--4575300	34	2.0	34	83	11	86	1	19	4	75	1.06
4579397--4579430	16	2.1	16	88	0	50	35	20	2	41	1.68
4590396--4590430	17	2.0	18	88	5	54	28	25	17	28	1.97
4604711--4604735	7	3.6	7	100	0	50	64	12	0	24	1.27
4611925--4611996	38	1.9	37	86	8	101	33	1	0	65	1.02
4616290--4616338	19	2.5	20	87	12	66	4	20	4	71	1.19
4616276--4616338	19	3.2	19	80	12	65	7	20	3	68	1.29
4626272--4626316	16	2.8	16	96	0	81	48	20	11	20	1.79
4635557--4635856	148	2.0	148	94	0	519	31	26	12	30	1.92
4636156--4636196	19	2.1	20	86	4	57	31	9	0	58	1.31
4636603--4636645	9	4.4	10	80	14	54	0	20	2	76	0.89
4636603--4636645	19	2.2	20	87	4	61	0	20	2	76	0.89
4636602--4636675	27	2.9	23	74	20	58	1	20	8	70	1.20
4647727--4647757	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4647874--4647916	21	2.0	21	82	8	52	20	37	0	41	1.53
4647887--4647971	30	2.8	30	96	0	152	21	43	0	35	1.53
4648364--4648444	17	4.6	17	74	25	71	37	2	3	56	1.30
4650811--4650871	31	1.9	33	90	6	99	31	1	4	62	1.26
4653696--4653794	34	2.9	35	79	5	121	29	28	24	18	1.98
4653765--4654023	75	3.5	75	85	1	324	32	22	20	24	1.98
4653695--4654023	35	9.0	35	71	11	169	32	23	21	23	1.98
4653859--4653983	40	3.3	39	74	11	123	37	21	17	23	1.94
4655422--4655497	37	2.0	38	89	2	118	35	1	0	63	1.03
4655457--4655514	26	2.2	26	90	0	89	31	0	1	67	1.01
4661074--4661280	90	2.3	90	84	4	265	25	13	14	47	1.80
4661038--4661280	91	2.7	90	82	3	290	26	13	13	45	1.81
4661547--4661601	20	2.9	18	82	12	67	12	32	0	54	1.38
4661544--4661602	9	6.3	9	81	13	57	16	32	0	50	1.46
4664237--4664585	90	3.9	88	77	7	307	26	9	16	48	1.76
4678586--4678673	44	2.0	44	100	0	176	38	6	15	38	1.75
4678879--4678929	10	5.0	10	78	2	57	11	23	0	64	1.26
4686827--4686885	22	2.7	21	72	12	57	23	10	8	57	1.59
4690192--4690249	31	1.9	30	82	10	73	60	0	1	37	1.07
4691926--4691976	17	3.1	17	88	5	70	68	0	1	29	1.00
4694335--4694491	31	5.0	31	70	16	135	26	19	12	42	1.86
4694934--4695078	60	2.4	60	81	5	150	48	12	15	22	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4695941--4695980	20	2.0	20	90	0	62	30	10	10	50	1.69
4695926--4695992	34	1.9	35	90	3	109	32	7	11	47	1.68
4696072--4696121	18	2.8	18	90	0	73	44	2	0	54	1.11
4699830--4699891	22	2.8	20	75	18	52	32	0	11	56	1.35
4707891--4708210	164	2.0	164	88	6	488	32	12	19	35	1.88
4714125--4714157	14	2.4	14	90	5	50	60	0	0	39	0.97
4721139--4721267	41	3.1	41	75	9	118	34	26	16	22	1.95
4743706--4743756	15	3.4	14	75	21	50	64	0	0	35	0.94
4745046--4745088	22	2.0	21	86	4	59	46	0	2	51	1.13
4745227--4745273	24	2.0	24	91	8	78	74	0	2	23	0.93

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