genome.fa.s14.2.7.7.80.10.50.1000.21.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   

This is table  21  of  213  ( 25468 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)
5511585--5511706	60	2.0	60	90	0	190	54	12	0	32	1.44
5511728--5511871	61	2.4	61	96	0	261	56	11	0	31	1.35
5511879--5511940	27	2.3	27	82	0	79	20	30	22	25	1.98
5514799--5514829	3	10.3	3	92	0	53	32	0	32	35	1.58
5517889--5517928	20	2.0	20	85	5	53	25	2	5	67	1.23
5522898--5522950	23	2.3	23	90	0	88	52	11	18	16	1.73
5525473--5525522	24	2.0	26	84	7	68	46	14	2	38	1.56
5526368--5526410	10	4.4	10	83	13	54	51	6	0	41	1.29
5534828--5534870	16	2.8	16	82	13	54	39	18	4	37	1.72
5541082--5541291	46	4.3	46	81	15	253	32	15	23	28	1.95
5541178--5541205	13	2.2	13	100	0	56	32	0	39	28	1.57
5541132--5541251	59	2.0	59	100	0	240	32	13	25	28	1.93
5541086--5541291	105	2.0	103	96	1	376	32	15	24	28	1.95
5548252--5548630	158	2.5	146	80	12	396	29	7	9	53	1.60
5548328--5548692	158	2.3	159	86	3	508	27	7	8	56	1.56
5548789--5548860	27	2.7	27	84	0	99	11	31	31	25	1.90
5552900--5552939	20	2.0	20	100	0	80	10	40	5	45	1.60
5553708--5553739	10	3.2	10	95	0	55	50	6	0	43	1.27
5554555--5554587	17	1.9	17	93	0	57	36	3	9	51	1.49
5554596--5554634	16	2.5	16	83	4	53	46	0	7	46	1.31
5554566--5554715	61	2.5	61	80	4	178	41	4	8	46	1.52
5554937--5554982	7	6.6	7	78	16	51	60	10	0	28	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5554858--5555121	95	2.8	95	89	1	386	46	15	3	34	1.64
5554937--5554982	15	3.3	15	82	11	62	60	10	0	28	1.30
5554978--5555035	21	2.8	20	80	15	73	43	13	3	39	1.61
5555073--5555124	22	2.4	21	87	3	68	40	19	1	38	1.63
5555195--5555384	9	22.2	9	66	18	93	43	19	2	34	1.63
5555195--5555257	27	2.3	27	94	0	108	49	15	1	33	1.55
5555335--5555391	16	3.4	16	83	13	71	45	19	1	33	1.61
5557377--5557440	21	3.0	22	79	6	78	31	20	45	3	1.67
5557759--5558089	42	7.9	42	85	1	358	32	20	20	26	1.97
5558490--5558522	17	2.0	17	88	5	50	60	0	0	39	0.97
5561751--5561990	88	2.7	87	81	0	264	32	26	25	15	1.95
5564886--5564936	23	2.2	23	89	0	75	29	9	19	41	1.84
5565334--5565371	19	2.0	19	85	10	51	34	5	0	60	1.19
5566469--5566573	56	1.9	55	84	2	138	28	8	15	47	1.74
5583325--5583365	3	13.7	3	94	0	73	65	0	2	31	1.05
5583809--5583911	51	2.0	51	100	0	206	29	17	15	37	1.91
5592963--5593011	26	2.0	24	88	8	71	28	2	4	65	1.22
5597300--5597357	29	2.0	30	83	10	75	24	12	12	51	1.72
5598180--5598219	20	2.0	20	90	0	62	50	12	10	27	1.72
5604534--5604586	17	3.1	17	78	8	63	58	0	7	33	1.26
5604692--5604730	19	2.0	20	90	5	62	58	0	7	33	1.26
5605717--5605772	28	2.0	28	82	3	67	39	5	8	46	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5607327--5607351	12	2.1	12	100	0	50	48	0	44	8	1.32
5615467--5615624	78	2.0	78	98	0	307	39	10	6	43	1.65
5617887--5618002	57	2.0	57	100	0	232	25	35	12	26	1.91
5618805--5618839	15	2.3	15	90	0	52	37	8	25	28	1.85
5625719--5625762	19	2.3	20	84	7	56	27	20	11	40	1.86
5629856--5630204	86	4.0	86	92	1	540	26	22	24	27	2.00
5629909--5630129	42	5.2	42	61	20	107	26	24	23	25	2.00
5629941--5630158	41	5.1	41	61	20	97	26	22	24	26	2.00
5630152--5630427	134	2.1	134	94	1	482	27	19	23	29	1.98
5630329--5630617	95	3.0	95	98	0	560	30	20	22	27	1.98
5630424--5631180	229	3.3	229	97	0	1424	28	20	22	28	1.99
5630653--5630846	95	2.0	95	96	0	361	29	19	22	28	1.98
5630195--5630846	324	2.0	324	97	0	1232	28	20	22	28	1.98
5630916--5631073	45	3.4	45	68	17	133	29	18	22	29	1.97
5630204--5631075	324	2.7	318	88	4	973	28	20	22	28	1.98
5630882--5631075	95	2.0	95	95	0	352	29	19	22	28	1.98
5631186--5631391	87	2.4	88	89	1	299	31	14	24	29	1.95
5631236--5631501	132	2.0	131	88	3	392	28	15	25	29	1.96
5631186--5631497	44	7.1	44	76	5	274	29	15	25	29	1.96
5637747--5637798	28	1.9	26	84	7	68	69	5	5	19	1.30
5638178--5638234	26	2.2	26	84	6	71	61	3	3	31	1.30
5638373--5638407	17	2.1	17	88	0	52	54	0	8	37	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5638872--5638914	23	1.9	22	90	4	68	41	11	4	41	1.62
5638872--5638922	23	2.4	22	84	12	63	41	11	5	41	1.66
5638872--5638929	19	2.8	21	82	10	66	39	12	6	41	1.69
5640193--5640259	29	2.2	30	87	12	93	40	2	2	53	1.31
5640258--5640291	5	6.8	5	100	0	68	41	17	0	41	1.50
5640339--5640388	17	2.9	17	75	16	50	34	4	6	56	1.43
5646046--5646130	26	3.3	26	77	0	89	23	38	17	20	1.93
5647076--5647114	19	2.1	19	85	0	51	38	2	17	41	1.64
5653724--5653854	31	4.3	31	77	8	142	41	16	11	29	1.84
5653725--5653858	61	2.2	62	85	4	173	42	16	11	29	1.84
5653701--5653915	92	2.3	92	76	7	213	42	16	8	32	1.79
5653837--5653927	31	3.0	29	73	18	78	42	16	5	35	1.71
5653836--5653938	31	3.4	30	71	11	75	43	14	7	33	1.74
5653969--5653997	14	2.1	14	100	0	58	37	34	13	13	1.85
5656140--5656224	31	2.7	30	80	7	89	45	10	7	36	1.66
5659121--5659154	13	2.4	15	80	19	54	35	35	0	29	1.58
5659127--5659155	13	2.2	13	100	0	58	34	31	0	34	1.58
5659152--5659222	34	2.1	34	100	0	142	49	18	2	29	1.62
5661865--5662026	50	3.2	50	74	8	175	25	18	20	34	1.96
5661893--5662030	51	2.7	50	74	6	145	25	21	21	31	1.98
5663419--5663453	15	2.4	14	90	4	52	14	14	0	71	1.15
5664888--5664971	35	2.4	35	88	7	134	39	5	15	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5676486--5676510	11	2.3	11	100	0	50	60	0	0	40	0.97
5680389--5680437	24	2.0	24	81	14	57	34	2	0	63	1.06
5688932--5688962	15	2.1	15	93	0	53	22	16	19	41	1.89
5690840--5690878	16	2.4	16	91	0	60	35	12	2	48	1.55
5690838--5690926	34	2.6	35	76	5	92	35	12	3	48	1.58
5692320--5692359	12	3.3	12	96	0	71	2	40	17	40	1.63
5693922--5693978	5	11.2	5	83	16	73	38	0	1	59	1.08
5693987--5694082	40	2.3	40	89	3	147	63	8	28	0	1.23
5695445--5695556	37	2.9	39	73	8	111	22	20	27	29	1.98
5696533--5696625	25	3.8	24	84	11	127	20	24	19	35	1.96
5697577--5697604	13	2.2	13	100	0	56	21	7	25	46	1.76
5697897--5697945	24	2.0	24	96	0	89	12	10	20	57	1.64
5699588--5699654	5	13.2	5	86	13	93	40	0	0	59	0.97
5699591--5699646	3	21.0	3	75	23	54	39	0	0	60	0.97
5699663--5699758	40	2.3	40	92	3	156	64	8	27	0	1.22
5701123--5701234	37	2.9	39	73	8	111	22	20	27	29	1.98
5704781--5704880	25	4.0	25	73	17	80	34	3	18	45	1.64
5704789--5705039	9	28.8	9	69	12	148	31	3	19	44	1.69
5705184--5705586	53	7.6	53	67	14	220	45	4	10	39	1.60
5705287--5705338	13	4.0	13	87	9	70	44	1	9	44	1.48
5705288--5705346	13	4.5	13	87	10	66	47	1	11	38	1.50
5705451--5705618	13	12.8	13	73	12	101	44	4	10	40	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5706156--5706191	17	2.1	18	89	5	56	75	5	11	8	1.19
5706164--5706244	29	2.7	29	79	9	74	76	7	6	9	1.15
5706151--5706227	22	3.4	22	80	8	84	75	9	7	7	1.20
5706151--5706227	14	5.1	15	75	18	54	75	9	7	7	1.20
5706188--5706242	15	3.8	14	85	4	65	78	9	3	9	1.08
5706172--5706243	22	3.3	21	82	7	72	77	6	5	9	1.11
5706934--5706989	27	2.1	27	93	0	94	26	8	23	41	1.84
5707536--5707960	197	2.2	197	89	1	654	35	19	16	28	1.94
5708326--5708417	47	2.0	47	84	0	121	46	3	7	42	1.48
5708414--5708459	24	1.9	24	82	8	58	13	4	2	80	0.95

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