genome.fa.s17.2.7.7.80.10.50.1000.18.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  18  of  185  ( 22116 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)
4893724--4893775	20	2.6	19	80	14	52	44	0	1	53	1.11
4897445--4897871	222	1.9	222	96	0	782	31	17	20	30	1.95
4902277--4902301	3	8.3	3	100	0	50	0	32	0	68	0.90
4905761--4905803	21	2.0	21	81	4	50	48	2	2	46	1.27
4907318--4907372	17	3.2	18	79	7	69	60	0	0	40	0.97
4910388--4910444	24	2.4	24	79	5	62	50	5	1	42	1.35
4913279--4913630	52	7.0	52	85	8	467	34	14	22	28	1.93
4913331--4913637	98	3.1	98	91	1	429	34	14	22	28	1.93
4913265--4913630	150	2.5	144	92	5	579	34	14	22	28	1.94
4913601--4913783	37	5.0	37	94	1	307	37	16	21	24	1.94
4915035--4915202	58	3.0	58	87	10	237	22	13	30	33	1.92
4915054--4915144	28	3.2	28	66	22	80	25	15	31	27	1.95
4915095--4915237	49	2.9	49	93	0	232	23	13	30	32	1.94
4918377--4918728	52	7.0	52	85	8	467	34	14	22	28	1.93
4918429--4918735	98	3.1	98	91	1	429	34	14	22	28	1.93
4918363--4918728	150	2.5	144	92	5	579	34	14	22	28	1.94
4918699--4918881	37	5.0	37	94	1	307	37	16	21	24	1.94
4924393--4924457	29	2.2	29	84	7	87	35	1	6	56	1.33
4924393--4924457	30	2.2	28	82	12	78	35	1	6	56	1.33
4926286--4926357	31	2.3	32	90	2	110	19	44	22	13	1.86
4932893--4932951	26	2.3	26	97	2	111	33	3	0	62	1.12
4932940--4932978	11	3.5	11	85	0	60	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)
4932893--4932962	26	2.8	25	83	10	90	37	2	0	60	1.12
4934575--4934634	28	2.1	28	90	0	93	36	5	16	41	1.70
4935892--4935926	18	1.9	18	100	0	70	37	5	28	28	1.80
4943917--4943958	20	2.0	20	86	9	57	66	4	0	28	1.12
4947939--4947996	30	1.9	30	85	0	80	20	37	29	12	1.89
4951077--4951148	33	2.2	33	82	7	85	54	16	2	26	1.56
4965291--4965328	13	3.0	13	84	3	51	36	0	21	42	1.53
4978709--4978746	18	2.1	18	90	0	58	39	0	34	26	1.57
4978719--4978754	18	2.0	18	88	0	54	33	0	38	27	1.57
4981975--4982139	70	2.4	70	82	6	192	23	20	23	33	1.97
4985076--4985157	23	3.5	22	81	6	83	42	20	19	17	1.89
4987996--4988032	2	18.5	2	100	0	74	0	0	48	51	1.00
5017566--5017725	87	1.8	87	90	2	259	43	13	13	30	1.82
5018248--5018308	23	2.7	23	81	0	77	40	26	13	19	1.88
5021425--5021585	46	3.5	46	92	1	263	34	14	22	29	1.93
5024157--5024223	28	2.3	30	76	5	75	37	26	0	35	1.57
5030138--5030190	25	2.1	26	85	3	72	47	5	18	28	1.72
5034393--5034436	22	2.0	23	86	13	65	70	2	4	22	1.17
5035722--5035758	6	6.2	6	100	0	74	67	0	0	32	0.91
5035796--5035861	23	3.0	22	77	8	62	62	0	4	33	1.16
5038024--5038079	20	2.8	20	76	13	60	60	8	0	30	1.27
5038136--5038198	25	2.5	26	85	10	85	66	4	3	25	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039968--5041003	132	7.8	132	96	0	1766	28	25	17	27	1.98
5041116--5041311	95	2.1	95	97	0	365	28	22	18	30	1.98
5041347--5042324	46	21.4	45	62	14	169	28	23	20	27	1.99
5041011--5042358	229	5.9	229	79	8	1585	28	22	20	27	1.99
5041345--5041633	95	3.0	95	97	0	551	28	22	20	29	1.98
5041535--5042427	46	19.7	46	62	14	275	28	23	21	27	1.99
5041116--5041767	324	2.0	324	97	0	1232	28	22	20	28	1.98
5041535--5042034	134	3.7	134	98	0	966	28	23	21	27	1.99
5041535--5042034	267	1.9	268	98	0	966	28	23	21	27	1.99
5041936--5042224	95	3.0	95	98	0	560	27	22	20	29	1.98
5041211--5042525	591	2.2	592	99	0	2587	28	22	21	27	1.99
5042126--5042525	134	3.0	134	99	0	782	28	23	21	26	1.99
5046681--5046724	19	2.3	20	84	7	56	40	11	20	27	1.86
5048615--5048670	20	2.8	20	76	13	60	60	8	0	30	1.27
5048727--5048790	26	2.5	26	85	7	85	67	4	3	25	1.25
5055121--5055145	3	8.3	3	100	0	50	0	32	36	32	1.58
5055823--5055864	12	3.6	12	81	15	52	42	0	14	42	1.45
5056817--5056867	14	3.7	14	76	2	50	43	41	1	13	1.55
5056772--5056852	27	3.0	26	73	7	72	44	38	3	13	1.62
5057403--5057461	24	2.5	23	75	8	55	55	3	0	40	1.16
5057922--5057950	11	2.5	12	94	5	51	41	0	0	58	0.98
5057932--5057970	19	2.0	20	95	5	71	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5057936--5057978	20	2.2	19	83	4	50	34	0	6	58	1.25
5068374--5068407	16	2.2	16	89	5	52	61	0	0	38	0.96
5068483--5068518	16	2.2	16	90	0	54	30	2	2	63	1.22
5069951--5069979	13	2.3	13	94	5	51	0	13	0	86	0.58
5072280--5072351	2	36.0	2	100	0	144	50	0	50	0	1.00
5074515--5074569	29	1.9	28	92	3	92	43	5	12	38	1.66
5078069--5078097	15	1.9	15	100	0	58	55	6	34	3	1.44
5078068--5078139	24	3.0	24	81	0	81	55	2	38	2	1.29
5078104--5078148	24	1.9	23	90	4	72	55	0	44	0	0.99
5081805--5081830	2	13.0	2	100	0	52	50	50	0	0	1.00
5084717--5084835	38	3.1	38	80	9	136	30	13	26	29	1.94
5088873--5088902	14	2.1	15	93	6	53	13	3	0	83	0.77
5089683--5089715	11	3.2	11	83	16	52	36	0	0	63	0.95
5093326--5093375	11	4.4	11	80	14	57	80	14	0	6	0.90
5093325--5093383	14	4.9	13	84	16	67	79	13	0	6	0.92
5095483--5096438	88	10.9	88	93	0	1601	27	23	24	25	2.00
5096429--5097103	132	5.1	132	92	1	1106	31	18	24	26	1.97
5097858--5097887	14	2.1	15	93	6	53	13	3	0	83	0.77
5098639--5098701	8	8.1	8	70	19	53	39	3	0	57	1.15
5100667--5100706	20	2.0	20	85	5	53	35	15	0	50	1.44
5105060--5105097	18	2.1	18	90	0	58	15	13	18	52	1.74
5108149--5108202	28	1.9	28	96	0	99	38	7	14	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5123056--5123106	3	16.0	3	82	11	50	60	5	0	33	1.21
5123177--5123242	36	2.0	32	83	16	82	62	1	3	33	1.20
5127177--5127207	6	5.2	6	92	0	53	35	51	0	12	1.40
5132139--5132299	46	3.5	46	92	1	263	29	22	14	34	1.93
5135403--5135447	23	2.0	23	86	4	65	15	15	28	40	1.88
5135415--5135476	23	2.7	23	82	0	79	20	12	25	40	1.89
5135998--5136157	87	1.8	87	90	2	259	30	13	13	43	1.82
5146308--5146384	38	2.0	38	100	0	154	38	10	27	23	1.87
5161673--5161875	46	4.3	48	88	7	265	35	14	21	28	1.92
5161607--5161875	98	2.7	98	93	0	457	34	14	22	28	1.93
5161839--5161947	37	3.0	37	90	2	177	35	16	22	24	1.95
5166115--5166154	19	2.2	18	95	4	71	42	15	2	40	1.60
5181804--5181868	21	2.9	23	80	13	73	46	0	0	53	1.00
5181804--5181865	20	3.1	19	73	22	63	48	0	0	51	1.00
5184629--5184657	11	2.6	11	100	0	58	51	20	0	27	1.47
5202359--5202394	18	1.9	19	88	5	56	75	8	0	16	1.04
5202617--5202683	24	2.9	24	80	8	77	46	0	0	53	1.00
5205442--5205470	11	2.6	11	100	0	58	51	20	0	27	1.47
5214099--5214190	16	5.9	16	65	12	57	19	19	17	43	1.88
5214117--5214190	32	2.3	32	88	2	103	21	17	17	43	1.88
5223499--5223527	12	2.4	12	100	0	58	24	6	13	55	1.63
5228950--5228979	15	1.9	16	93	6	53	16	26	20	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5230855--5230951	36	2.7	35	81	10	115	51	10	9	28	1.67
5230904--5231050	55	2.5	58	78	9	174	51	11	9	27	1.69
5231074--5231108	18	1.9	18	100	0	70	34	11	11	42	1.77
5233829--5233996	78	2.2	77	82	4	194	23	20	30	25	1.99
5233829--5233996	38	4.3	39	82	5	178	23	20	30	25	1.99
5247789--5248012	40	5.6	39	82	6	166	25	21	28	25	1.99
5247789--5248012	80	2.8	80	82	5	242	25	21	28	25	1.99
5255725--5255894	40	4.3	40	85	1	207	23	21	30	24	1.99
5255747--5255929	79	2.3	80	80	1	208	25	21	29	24	1.99
5259117--5259149	14	2.4	14	94	0	57	30	18	0	51	1.46

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