genome.fa.s26.2.7.7.80.10.50.1000.16.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  16  of  204  ( 24404 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)
4834588--4834688	51	2.0	51	82	0	121	28	26	16	27	1.97
4835007--4835102	45	2.1	45	100	0	192	30	23	8	37	1.84
4835068--4835735	87	7.7	87	84	2	824	25	23	21	28	1.99
4835222--4835738	44	11.9	43	69	8	233	25	24	21	28	1.99
4835068--4835729	260	2.5	261	84	3	821	25	24	21	28	1.99
4835068--4835737	347	1.9	348	86	2	961	25	23	22	28	1.99
4842779--4842833	28	2.0	28	81	0	65	47	5	16	30	1.69
4847961--4848023	26	2.5	25	80	12	58	61	4	4	28	1.36
4849441--4849641	93	2.2	92	80	8	212	37	18	8	34	1.83
4849813--4849887	37	2.0	37	89	0	114	46	2	2	48	1.30
4849896--4850030	39	3.5	40	74	15	129	58	3	6	31	1.41
4850174--4850221	19	2.5	18	83	16	53	31	0	4	64	1.12
4850175--4850255	28	2.9	27	72	18	69	29	1	2	66	1.12
4850231--4850284	20	2.8	19	77	2	54	31	3	1	62	1.23
4850447--4850626	85	2.1	86	81	8	204	32	8	13	45	1.75
4850714--4850747	14	2.5	13	86	13	50	26	0	0	73	0.83
4851525--4851560	2	19.0	2	88	11	58	52	0	0	47	1.00
4855816--4855857	22	1.9	22	85	0	57	28	28	19	23	1.98
4856368--4856447	9	9.2	9	75	13	69	57	0	1	41	1.07
4856387--4856425	20	2.0	20	85	10	53	64	0	0	35	0.94
4858920--4858997	24	3.2	23	77	15	77	35	23	28	12	1.91
4858932--4858997	24	2.7	24	86	9	89	37	22	27	12	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4859567--4859594	11	2.5	11	100	0	56	53	7	0	39	1.28
4861310--4861385	30	2.7	27	73	16	64	19	2	14	63	1.42
4864167--4864298	66	2.0	65	92	4	221	23	18	36	21	1.95
4864877--4864905	7	4.1	7	100	0	58	27	0	0	72	0.85
4864926--4865011	14	6.5	13	69	15	52	32	4	1	61	1.24
4866303--4867507	44	27.7	44	69	11	522	28	20	19	31	1.97
4866353--4867464	217	5.1	217	80	4	1211	28	20	19	31	1.97
4866303--4867022	173	4.2	173	78	5	537	28	20	19	31	1.97
4866386--4867507	129	8.6	130	76	8	915	28	20	19	31	1.97
4867392--4867512	46	2.7	47	83	5	142	28	20	21	29	1.98
4869860--4869895	6	6.0	6	90	9	56	2	13	0	83	0.76
4875101--4875575	261	1.8	261	89	0	743	31	16	24	27	1.96
4875486--4875624	51	2.7	51	78	3	145	30	15	26	27	1.96
4875602--4875644	21	2.1	21	86	4	61	39	6	30	23	1.81
4875361--4875679	174	1.8	174	84	2	435	30	14	26	27	1.95
4875551--4875686	72	1.9	72	84	3	184	31	13	27	27	1.94
4875725--4875838	51	2.2	51	82	3	140	30	17	22	28	1.97
4875958--4876428	44	10.7	44	66	9	199	28	21	25	24	1.99
4875902--4876493	132	4.5	132	88	1	821	29	20	24	25	1.99
4876488--4876573	45	1.9	45	85	4	120	32	15	24	27	1.95
4878403--4878435	16	2.1	16	88	11	50	27	0	3	69	1.03
4878660--4878688	13	2.1	14	93	6	51	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4878826--4878886	18	3.4	17	74	17	52	18	4	4	72	1.21
4878825--4878907	44	1.9	42	81	16	98	19	4	6	69	1.27
4879190--4879331	73	1.9	73	94	2	250	28	18	17	35	1.94
4884094--4884247	83	1.9	83	91	2	256	31	11	16	40	1.85
4885660--4885696	19	1.9	19	88	0	56	64	8	0	27	1.21
4892494--4892545	24	2.2	24	89	0	77	50	9	3	36	1.54
4899082--4899141	28	2.1	28	100	0	120	41	5	13	40	1.66
4899082--4899155	28	2.6	28	91	4	94	40	4	17	37	1.69
4901587--4901623	15	2.4	16	86	13	51	35	2	0	62	1.10
4905514--4905563	24	2.1	24	96	0	91	24	34	4	38	1.74
4908883--4909221	109	3.1	109	89	2	515	36	16	15	31	1.90
4911216--4911266	26	1.9	26	84	4	66	60	1	11	25	1.41
4911461--4911490	7	4.3	7	100	0	60	86	0	13	0	0.57
4911778--4911823	24	2.0	23	91	4	74	6	4	15	73	1.19
4912910--4912947	17	2.3	17	90	4	60	44	2	2	50	1.30
4913250--4913320	31	2.3	32	78	7	76	30	4	2	61	1.29
4913589--4913637	19	2.6	19	78	15	57	40	26	8	24	1.83
4914861--4914915	27	2.0	27	82	0	65	56	9	3	30	1.48
4921598--4921650	28	1.9	26	82	17	63	43	3	5	47	1.45
4925444--4925526	30	2.8	30	84	12	93	57	4	2	34	1.33
4925668--4925711	17	2.6	17	85	3	63	47	0	11	40	1.39
4925837--4925894	21	2.8	20	73	17	55	65	6	1	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4926170--4926216	23	2.0	24	87	4	69	38	17	6	38	1.75
4926774--4926821	25	2.0	24	84	12	62	47	2	0	50	1.12
4930990--4931083	27	3.5	27	73	16	88	31	3	3	61	1.27
4932302--4932326	12	2.1	12	100	0	50	76	0	8	16	1.02
4933889--4933941	24	2.2	24	82	0	61	35	18	15	30	1.92
4934375--4934419	21	2.1	21	100	0	90	37	13	40	8	1.76
4934727--4934754	11	2.5	11	100	0	56	50	0	17	32	1.47
4935815--4935870	26	2.1	27	80	9	71	39	37	5	17	1.73
4937367--4937392	11	2.4	11	100	0	52	0	0	11	88	0.52
4938916--4938950	18	1.9	18	88	11	54	8	8	0	82	0.83
4939671--4939731	18	3.3	18	77	8	68	37	9	1	50	1.45
4939675--4939735	20	3.2	20	81	9	74	39	9	1	49	1.46
4945308--4946021	132	5.5	125	84	7	717	28	18	25	28	1.98
4945308--4946021	264	2.8	258	86	3	992	28	18	25	28	1.98
4946679--4946713	18	1.9	18	88	11	54	8	8	0	82	0.83
4946782--4946827	18	2.6	18	100	0	92	6	28	54	10	1.60
4947453--4947513	18	3.3	18	77	8	68	37	11	1	49	1.49
4947457--4947517	20	3.2	21	80	17	71	39	11	1	47	1.50
4948870--4948930	18	3.3	18	72	2	59	49	3	0	47	1.18
4949580--4949620	16	2.5	17	84	11	59	29	0	12	58	1.34
4952230--4952271	18	2.3	19	87	4	59	35	0	4	59	1.19
4952230--4952271	10	4.6	9	80	16	50	35	0	4	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4955389--4955434	16	2.8	17	78	18	53	39	2	0	58	1.10
4966380--4966404	2	12.5	2	100	0	50	52	0	0	48	1.00
4966618--4966657	21	2.0	20	85	5	53	0	22	2	75	0.93
4973038--4973119	42	2.0	42	97	0	155	26	23	12	37	1.90
4981443--4981489	23	2.1	23	96	4	87	40	8	2	48	1.45
4986128--4986172	20	2.3	19	77	7	54	15	17	2	64	1.39
4993052--4993107	27	2.0	27	82	3	67	58	5	0	35	1.21
4993056--4993120	19	3.3	19	76	24	55	58	3	0	38	1.14
4997609--4997660	16	3.3	15	78	5	50	55	0	23	21	1.43
4999248--4999282	3	11.7	3	93	0	61	34	0	37	28	1.58
5000934--5001010	28	2.7	27	82	11	84	63	1	7	27	1.29
5001485--5001550	34	1.9	35	81	9	82	34	3	0	62	1.11
5003645--5003687	17	2.4	19	81	14	56	55	13	0	30	1.39
5005123--5005178	29	1.9	29	92	0	94	39	12	8	39	1.75
5008100--5008149	25	1.9	25	84	8	64	32	26	20	22	1.98
5008287--5008358	26	2.8	26	76	12	78	34	23	25	16	1.95
5013992--5014133	66	2.2	66	79	2	151	25	14	27	32	1.95
5024497--5024548	24	2.2	24	85	0	68	50	3	3	42	1.39
5024539--5024576	18	2.1	18	90	9	60	68	2	0	28	1.03
5024534--5024573	9	4.2	10	81	18	50	62	2	0	35	1.09
5026129--5026445	44	7.2	44	69	8	187	28	23	18	29	1.98
5026022--5026313	132	2.2	133	90	1	462	27	23	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5026173--5026401	88	2.6	88	92	0	377	28	23	19	28	1.98
5026088--5026509	220	1.9	220	96	0	781	28	23	18	29	1.98
5026084--5026486	132	3.1	132	84	4	440	28	23	19	28	1.98
5026173--5026442	88	3.1	87	87	4	303	28	24	18	28	1.98
5026084--5026495	44	9.4	45	66	15	173	29	23	18	28	1.98
5028189--5028221	14	2.4	14	90	5	50	0	3	12	84	0.72
5032571--5032633	21	3.0	21	88	2	81	33	31	4	30	1.78
5033736--5033769	15	2.3	15	94	0	59	35	26	32	5	1.81
5037505--5037567	21	3.0	21	88	2	81	33	31	4	30	1.78
5038022--5038052	16	2.0	15	93	6	53	32	12	19	35	1.90

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