genome.fa.s25.2.7.7.80.10.50.1000.179.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  179  of  214  ( 25680 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)
52600136--52600189	21	2.6	21	81	0	63	27	44	1	25	1.64
52600766--52600917	81	1.9	81	92	1	259	43	24	1	30	1.65
52600766--52600927	82	2.0	81	90	1	252	42	24	2	30	1.68
52600932--52600977	21	2.2	21	88	0	65	32	39	0	28	1.57
52600984--52601013	14	2.1	14	93	0	51	40	36	3	20	1.69
52601012--52601053	22	2.0	21	90	4	66	38	30	2	28	1.70
52601099--52601142	21	2.0	22	91	4	72	45	25	0	29	1.54
52601344--52601523	89	2.0	89	96	0	333	48	6	3	41	1.46
52601547--52601781	41	5.7	41	89	2	346	31	25	21	21	1.98
52601818--52601954	40	3.4	39	78	4	139	20	21	20	37	1.94
52602427--52602510	39	2.2	39	93	2	152	27	21	9	41	1.84
52612677--52612836	45	3.6	45	97	0	302	26	9	47	16	1.77
52615688--52615726	9	4.1	10	93	3	55	92	0	7	0	0.39
52615688--52615721	1	34.0	1	93	0	59	97	0	2	0	0.19
52618823--52618882	23	2.5	24	74	15	61	58	0	0	41	0.98
52618822--52618879	17	3.3	18	78	9	57	58	0	0	41	0.98
52619822--52619865	3	14.7	3	100	0	88	65	0	0	34	0.93
52620102--52620155	26	2.1	26	100	0	108	57	0	0	42	0.98
52622588--52622612	4	6.2	4	100	0	50	24	0	0	76	0.80
52626772--52626805	17	2.0	17	94	0	59	44	50	0	5	1.26
52631411--52631444	17	2.0	17	94	0	59	44	50	0	5	1.26
52641040--52641176	73	1.9	73	93	0	238	24	22	29	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52641461--52641576	54	2.1	54	93	0	205	23	25	28	22	1.99
52642620--52642734	24	4.7	24	72	2	95	33	20	29	15	1.94
52642668--52642807	25	5.7	24	69	14	81	35	18	26	19	1.95
52644603--52644702	42	2.4	42	93	0	164	36	11	29	24	1.89
52648089--52648141	27	2.0	27	88	7	81	73	1	22	1	1.03
52648682--52648717	18	2.0	18	94	0	63	27	8	16	47	1.75
52656117--52656164	20	2.4	20	85	0	69	62	4	0	33	1.14
52666924--52667127	43	4.7	43	85	2	275	27	30	19	22	1.97
52668051--52668482	23	19.0	23	73	11	286	39	24	6	30	1.80
52668088--52668480	68	5.8	67	73	11	341	39	23	5	30	1.78
52668057--52668481	91	4.7	89	72	13	289	39	24	6	30	1.79
52668051--52668481	137	3.2	137	90	1	668	39	24	6	30	1.80
52668825--52668908	39	2.1	39	86	4	114	51	7	11	29	1.65
52671329--52671378	26	1.9	26	100	0	100	24	0	6	70	1.10
52671330--52671392	26	2.3	25	86	10	72	22	1	11	65	1.33
52671440--52671602	89	1.8	89	88	5	249	33	11	8	46	1.70
52672308--52672341	14	2.4	14	90	9	52	32	44	0	23	1.54
52672341--52672380	20	2.0	20	85	9	55	40	40	0	20	1.52
52672367--52672401	15	2.4	14	86	9	52	40	37	0	22	1.55
52672564--52672619	23	2.5	23	85	2	78	32	42	0	25	1.55
52672913--52673099	73	2.6	73	89	1	286	25	26	22	25	2.00
52672996--52673318	113	2.8	114	86	0	459	26	26	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52679374--52679428	13	4.1	13	77	9	56	38	5	14	41	1.69
52680315--52680427	58	1.9	58	96	0	208	42	12	15	29	1.84
52688541--52688713	63	2.8	63	84	4	215	24	18	27	29	1.98
52688555--52688737	63	2.9	62	80	6	197	25	18	27	28	1.98
52689868--52689906	18	2.2	17	86	13	53	30	0	20	48	1.50
52690132--52690207	23	3.3	23	84	0	107	23	19	27	28	1.98
52691365--52691503	49	2.8	49	87	0	197	25	16	25	31	1.96
52696296--52696329	15	2.3	15	89	0	50	0	2	44	52	1.16
52696295--52696322	5	5.6	5	100	0	56	0	0	39	60	0.97
52700311--52700339	2	14.5	2	100	0	58	51	0	48	0	1.00
52706868--52706899	6	5.3	6	100	0	64	50	0	50	0	1.00
52721192--52721240	23	2.1	23	92	0	80	30	8	22	38	1.83
52724558--52724612	27	2.0	27	96	0	101	20	25	34	20	1.96
52730100--52730190	45	2.0	44	82	2	110	31	5	26	36	1.79
52730355--52730389	18	2.0	17	88	5	52	54	0	0	45	0.99
52730454--52730505	15	3.6	15	80	12	56	53	1	0	44	1.11
52730574--52730625	15	3.6	15	80	12	56	53	1	0	44	1.11
52730338--52730750	120	3.4	120	95	2	724	49	4	2	42	1.39
52730791--52730838	26	1.9	25	84	16	64	52	2	0	45	1.12
52730746--52730955	92	2.3	92	82	7	232	49	3	2	44	1.35
52730781--52730974	92	2.1	92	86	5	268	46	4	3	45	1.41
52733973--52734048	33	2.3	33	97	0	143	35	5	15	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52734091--52734172	37	2.2	37	91	0	128	35	9	14	40	1.79
52741854--52741934	40	2.0	40	100	0	162	40	17	17	24	1.90
52746432--52746456	13	1.9	13	100	0	50	40	16	4	40	1.67
52751381--52751431	24	2.1	24	88	0	75	37	5	11	45	1.65
52757831--52757873	21	2.0	21	100	0	86	44	37	13	4	1.65
52760166--52760205	19	2.1	19	86	9	55	35	2	0	62	1.09
52772417--52772448	3	10.7	3	93	0	55	0	0	37	62	0.95
52773587--52773637	25	2.0	25	85	14	70	35	0	0	64	0.94
52773586--52773647	23	2.5	26	80	17	71	35	0	1	62	1.05
52783612--52783640	2	14.5	2	100	0	58	51	0	48	0	1.00
52785675--52785724	25	2.1	24	85	7	66	18	14	2	66	1.35
52788948--52788972	4	6.2	4	100	0	50	48	0	0	52	1.00
52790095--52790172	20	3.8	19	76	10	66	42	2	2	52	1.28
52792282--52792323	18	2.2	19	83	8	50	16	4	14	64	1.45
52796779--52796831	18	2.9	18	81	13	65	83	3	7	5	0.92
52796790--52796885	25	3.8	24	70	21	72	73	3	16	6	1.16
52796841--52796893	19	2.7	20	80	11	65	71	0	22	5	1.06
52798479--52799097	86	7.2	86	92	0	986	30	21	23	25	1.99
52799222--52799324	44	2.3	44	82	9	122	32	21	21	25	1.98
52799309--52799431	44	2.8	44	80	3	131	29	15	21	33	1.94
52800316--52800356	19	2.2	19	86	4	57	0	14	2	82	0.76
52801662--52801703	18	2.2	19	83	8	50	16	4	14	64	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52804956--52805003	17	2.6	19	80	16	64	41	0	18	39	1.51
52804968--52805003	17	2.1	17	100	0	72	41	0	22	36	1.54
52806361--52806394	8	4.4	8	96	3	61	91	0	8	0	0.43
52806461--52806520	29	2.1	29	100	0	120	40	10	13	36	1.78
52818740--52818823	23	3.5	22	79	11	78	25	25	20	29	1.99
52825300--52825333	16	2.2	16	94	5	61	5	5	14	73	1.21
52827453--52827528	30	2.5	30	95	0	134	17	3	52	26	1.61
52827595--52827655	21	2.9	21	95	0	104	13	0	54	32	1.39
52832029--52832060	12	2.7	12	90	0	55	28	6	0	65	1.16
52835538--52835576	18	2.2	17	86	13	53	33	0	20	46	1.51
52835695--52835723	8	3.6	8	100	0	58	24	13	27	34	1.93
52835810--52835882	23	3.2	23	92	0	128	23	21	24	30	1.99
52846549--52846645	48	2.0	48	97	0	185	37	24	9	28	1.86
52846797--52847065	46	5.8	46	87	3	398	29	23	8	38	1.85
52847296--52847332	17	2.2	17	90	9	58	32	0	0	67	0.91
52848728--52849119	23	16.6	24	73	12	215	40	17	13	28	1.88
52848800--52849116	23	13.5	22	74	12	238	41	16	14	27	1.87
52848728--52849116	71	5.5	71	89	1	557	40	17	13	28	1.88
52848729--52849116	141	2.7	142	91	1	618	40	17	13	27	1.88
52849830--52849911	28	3.0	25	80	15	83	30	21	12	35	1.90
52849839--52849911	28	2.6	28	88	0	101	28	24	12	34	1.92
52851596--52851656	32	1.9	32	83	12	81	49	1	4	44	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52851615--52851656	20	2.1	20	86	0	57	47	0	7	45	1.30
52854315--52854348	13	2.9	11	84	16	50	61	2	0	35	1.11
52857658--52857704	25	1.9	24	87	12	69	34	0	4	61	1.15
52876823--52876900	31	2.5	31	80	2	93	30	17	6	44	1.74
52903363--52903407	5	8.8	5	82	4	54	6	42	11	40	1.67
52903363--52903407	10	4.4	10	88	5	63	6	42	11	40	1.67
52903423--52903454	15	2.2	15	94	5	57	0	15	0	84	0.63
52903684--52903710	14	1.9	14	100	0	54	51	18	0	29	1.46
52907296--52907335	21	1.9	21	84	0	53	42	0	5	52	1.23
52914328--52914368	16	2.5	17	80	11	50	17	19	0	63	1.31

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