genome.fa.s5.2.7.7.80.10.50.1000.124.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  124  of  208  ( 24913 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)
38095968--38096108	32	4.4	32	82	0	149	19	19	20	40	1.92
38097122--38097183	3	20.7	3	100	0	124	67	0	0	32	0.91
38104250--38104305	16	3.2	16	80	17	51	10	16	3	69	1.30
38106397--38106440	18	2.4	18	84	3	52	31	9	2	56	1.43
38106756--38106828	22	3.3	22	71	3	65	28	4	31	35	1.76
38115932--38116195	50	5.2	50	93	2	429	25	20	32	21	1.98
38119788--38119837	3	16.7	3	91	0	82	72	0	28	0	0.86
38121052--38121077	9	2.9	9	100	0	52	57	0	0	42	0.98
38138012--38138083	35	2.1	35	100	0	144	45	22	5	26	1.74
38138493--38138734	50	4.8	49	76	6	148	24	26	21	28	1.99
38148928--38149006	10	7.7	10	78	5	86	56	0	0	43	0.99
38148928--38149005	21	3.8	21	89	1	113	56	0	0	43	0.99
38155725--38155764	15	2.7	15	88	0	53	30	15	10	45	1.78
38156808--38156847	21	2.0	20	90	5	62	42	25	20	12	1.86
38165422--38165507	22	3.9	22	69	6	66	26	4	30	38	1.77
38175654--38175682	3	9.7	3	100	0	58	65	0	34	0	0.93
38176885--38176910	9	2.9	9	100	0	52	57	0	0	42	0.98
38178203--38178255	25	2.1	25	85	0	70	13	3	7	75	1.15
38178319--38178360	19	2.2	20	82	4	50	30	7	11	50	1.66
38179975--38180019	22	2.0	22	83	8	56	40	11	0	48	1.39
38184596--38184634	20	2.0	20	90	10	62	15	23	5	56	1.59
38184925--38185031	50	2.1	50	85	0	151	19	31	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38203554--38203601	10	4.6	10	82	10	51	62	0	0	37	0.95
38208826--38208865	15	2.7	15	88	0	53	30	15	10	45	1.78
38214085--38214160	34	2.2	34	92	0	125	48	14	3	32	1.62
38227208--38227243	17	2.2	16	90	5	54	8	25	0	66	1.19
38228022--38228055	14	2.4	14	90	0	50	23	23	0	52	1.47
38238139--38238182	23	1.9	23	85	0	61	25	9	22	43	1.82
38241653--38241868	73	2.9	72	82	4	254	28	23	24	23	1.99
38241656--38241870	76	2.9	73	82	4	245	27	23	24	24	2.00
38241806--38242100	113	2.6	113	89	0	448	25	20	27	27	1.99
38242031--38242168	72	1.9	73	85	7	192	23	23	24	28	2.00
38242434--38242512	38	2.1	37	92	2	131	16	2	41	39	1.62
38242434--38242507	21	3.7	21	77	14	93	14	2	44	37	1.60
38242673--38242724	20	2.6	20	85	8	70	13	0	38	48	1.43
38242869--38242928	28	2.1	28	84	6	77	16	3	31	48	1.63
38242970--38243030	23	2.8	21	79	13	61	19	3	31	45	1.66
38243061--38243093	16	2.1	16	88	5	50	60	6	0	33	1.21
38243354--38243657	148	2.1	148	87	1	430	25	15	20	38	1.92
38243824--38243851	14	2.0	14	100	0	56	28	50	0	21	1.49
38247949--38248000	21	2.5	21	84	9	70	32	13	46	7	1.72
38248367--38248585	85	2.6	84	81	9	232	26	19	22	31	1.97
38248385--38248585	42	4.7	42	74	10	144	26	20	22	30	1.98
38252465--38252622	31	5.1	31	90	0	235	37	27	11	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38252465--38252613	62	2.4	62	95	0	262	36	27	11	24	1.90
38261523--38261566	23	1.9	23	95	0	79	22	31	20	25	1.98
38265100--38265189	45	2.0	45	95	0	162	34	23	15	26	1.95
38265191--38265386	51	3.9	50	81	4	241	30	28	17	23	1.97
38265198--38265382	101	1.8	101	91	3	309	31	27	17	23	1.97
38267353--38267403	23	2.2	23	89	0	75	43	21	7	27	1.80
38273010--38273082	37	1.9	37	84	13	96	32	23	1	42	1.63
38281041--38281116	20	3.8	20	87	6	109	50	0	27	22	1.50
38283638--38283666	12	2.3	13	94	5	51	20	6	6	65	1.40
38297384--38297561	77	2.3	78	95	1	315	31	26	19	23	1.98
38297461--38297666	105	2.0	104	90	4	326	32	30	18	18	1.95
38297995--38298058	30	2.2	29	81	10	76	29	28	6	35	1.82
38298002--38298058	30	1.9	30	85	3	80	29	24	7	38	1.82
38303664--38303697	6	5.7	6	100	0	68	50	32	0	17	1.47
38306046--38306119	29	2.5	29	82	4	85	25	14	13	45	1.82
38306447--38306482	18	2.0	18	100	0	72	27	22	5	44	1.75
38307490--38307566	29	2.5	31	87	4	104	46	12	14	25	1.80
38308683--38308727	12	3.8	12	90	0	63	17	4	31	46	1.68
38308749--38309064	4	79.5	4	90	1	429	23	3	25	46	1.69
38308679--38308761	36	2.3	36	82	0	103	19	6	28	45	1.74
38310828--38310858	2	15.5	2	100	0	62	51	0	0	48	1.00
38326468--38326519	25	2.1	25	85	0	68	40	7	3	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38327909--38327943	16	2.2	16	89	0	52	20	14	20	45	1.85
38332088--38332143	26	2.1	27	90	3	87	14	10	12	62	1.55
38333252--38333790	45	12.1	45	80	5	601	31	17	22	28	1.97
38333252--38333790	132	4.0	135	80	6	497	31	17	22	28	1.97
38333250--38333790	223	2.4	219	84	5	671	31	17	22	29	1.97
38334427--38334462	16	2.3	16	90	4	56	16	5	0	77	0.94
38335203--38335255	3	17.7	3	90	0	79	35	1	0	62	1.06
38335394--38335450	27	2.2	26	84	9	73	38	10	0	50	1.37
38335612--38335660	21	2.2	21	82	7	62	40	10	4	44	1.57
38335999--38336029	9	3.4	9	90	0	53	25	12	22	38	1.90
38338613--38338643	15	2.1	15	93	0	53	25	3	19	51	1.62
38339187--38339314	23	5.6	22	76	11	89	30	2	27	39	1.69
38339146--38339503	182	2.0	182	94	1	637	29	4	25	40	1.75
38339184--38339505	46	7.1	46	74	7	248	29	4	26	40	1.75
38339230--38339499	23	11.8	23	71	8	113	30	4	25	40	1.75
38339736--38339827	31	3.0	30	87	9	98	5	17	16	60	1.53
38339756--38339827	31	2.4	31	95	2	128	4	20	15	59	1.52
38342988--38343110	58	2.1	58	89	3	185	44	0	2	52	1.14
38344268--38344315	22	2.2	22	85	7	62	29	4	10	56	1.52
38344950--38344979	2	15.0	2	100	0	60	50	0	0	50	1.00
38346905--38346964	21	2.9	21	92	0	102	11	21	18	48	1.80
38347459--38347618	79	2.0	79	96	0	293	36	7	20	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38347769--38347796	2	14.0	2	100	0	56	50	0	0	50	1.00
38348525--38348560	2	18.0	2	100	0	72	50	0	0	50	1.00
38349042--38349093	13	3.7	13	74	18	50	17	36	30	15	1.91
38349031--38349099	30	2.3	30	97	0	129	15	30	34	18	1.93
38349031--38349080	17	3.2	17	72	21	63	16	30	34	20	1.94
38353726--38353792	29	2.3	29	80	10	75	22	14	16	46	1.84
38367901--38367961	28	2.1	30	87	6	90	50	0	3	45	1.17
38373686--38373879	96	2.0	96	98	0	379	29	6	29	34	1.83
38376945--38377121	72	2.5	72	79	1	194	37	24	13	24	1.91
38378800--38378867	24	2.8	24	77	4	75	33	17	23	25	1.96
38379102--38379165	25	2.6	25	69	14	60	28	14	23	34	1.93
38379788--38379839	27	1.9	27	96	0	95	51	7	15	25	1.69
38382774--38382809	18	2.0	18	94	0	63	30	5	25	38	1.78
38386452--38386512	31	2.0	31	86	0	86	24	24	34	16	1.95
38387735--38387789	25	2.2	25	83	6	76	36	12	20	30	1.90
38393312--38394716	469	3.0	468	92	1	2312	23	11	26	38	1.89
38394767--38395122	177	2.0	177	97	0	667	24	21	34	19	1.96
38396054--38396107	28	2.0	27	85	3	72	35	7	12	44	1.71
38398714--38398763	10	4.6	11	78	12	50	74	16	10	0	1.08
38398707--38398741	13	2.8	12	87	12	52	77	11	8	2	1.10
38404881--38404923	19	2.2	20	84	12	54	39	4	30	25	1.76
38405309--38405333	10	2.5	10	100	0	50	36	0	12	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38414147--38414393	50	4.8	50	81	4	237	21	28	22	27	1.99
38423472--38423551	27	3.0	26	78	12	81	18	16	20	45	1.86
38425480--38425726	50	4.8	50	80	5	212	23	27	21	27	1.99
38427845--38427885	17	2.5	17	88	7	59	39	2	14	43	1.59
38428111--38428273	41	4.0	41	90	0	256	29	19	27	23	1.98
38428111--38428272	82	2.0	81	96	1	297	29	18	27	24	1.98
38428468--38428564	37	2.9	34	80	11	110	27	9	27	35	1.88
38428495--38428584	37	2.5	36	84	7	105	26	10	27	35	1.88
38442969--38443153	101	1.8	102	90	3	302	23	16	27	32	1.96
38442966--38443161	51	3.9	49	81	4	214	23	16	28	31	1.96

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