genome.fa.s20.2.7.7.80.10.50.1000.183.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  183  of  199  ( 23844 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)
53265500--53265535	6	6.0	6	100	0	72	66	0	0	33	0.92
53265849--53266019	92	1.9	89	86	3	243	33	9	19	37	1.85
53267328--53267368	18	2.4	17	84	8	55	14	9	2	73	1.19
53269640--53269676	19	2.0	19	89	5	58	35	0	8	56	1.29
53269645--53269717	20	3.7	20	83	10	89	31	0	9	58	1.30
53270587--53270621	19	1.9	18	88	11	54	40	11	5	42	1.65
53272725--53272760	18	1.9	20	88	11	58	36	0	0	63	0.94
53279872--53279904	3	11.0	3	100	0	66	66	0	33	0	0.92
53280358--53280387	8	3.6	8	95	4	51	33	0	40	26	1.57
53280661--53280828	86	2.0	84	83	4	212	38	22	7	31	1.82
53280897--53280929	16	2.1	16	88	5	50	57	0	6	36	1.23
53281216--53281270	19	2.9	18	79	15	58	23	3	1	70	1.12
53281362--53281525	86	1.9	86	83	3	215	34	9	15	40	1.80
53281945--53281980	18	2.1	18	90	10	58	61	0	0	38	0.96
53281955--53281986	5	6.8	5	86	13	50	62	0	0	37	0.95
53282967--53283011	23	2.0	22	82	4	54	57	4	4	33	1.38
53288737--53289018	141	2.0	141	83	2	361	34	13	20	30	1.92
53290877--53290926	17	2.9	18	82	8	59	46	4	20	30	1.69
53291917--53292047	54	2.4	55	87	3	176	22	26	23	26	2.00
53294518--53294721	25	8.3	25	71	11	136	18	23	21	37	1.94
53294518--53294695	49	3.6	48	77	9	153	17	23	21	37	1.94
53294518--53294721	49	4.1	47	74	8	140	18	23	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53295973--53296072	39	2.6	39	86	0	146	27	13	26	34	1.93
53299884--53299917	5	6.8	5	100	0	68	17	0	0	82	0.67
53302305--53302341	13	2.7	14	84	16	51	35	0	0	64	0.94
53302293--53302340	20	2.4	20	83	13	55	35	0	0	64	0.94
53304272--53304301	14	2.1	14	100	0	60	30	6	6	56	1.51
53307810--53307870	20	3.0	21	78	11	72	40	0	4	54	1.22
53308033--53308070	14	2.9	14	88	7	53	55	0	0	44	0.99
53308306--53308350	23	2.0	23	95	0	81	37	8	26	26	1.86
53313836--53313916	8	10.5	8	71	18	57	34	0	0	65	0.93
53313812--53313913	32	3.2	31	77	18	104	35	0	0	64	0.94
53313828--53313873	22	2.0	23	84	12	60	32	0	0	67	0.91
53313831--53313906	26	2.8	26	70	27	68	34	0	0	65	0.93
53313812--53313913	33	3.2	32	75	23	92	35	0	0	64	0.94
53313824--53313898	17	4.4	18	67	23	56	34	0	0	65	0.93
53313859--53313916	7	7.4	7	76	19	53	34	0	0	65	0.93
53313834--53313917	15	5.4	16	72	19	63	34	0	0	65	0.93
53326419--53326458	1	40.0	1	100	0	80	0	0	0	100	0.00
53328250--53328294	16	2.9	16	83	12	58	48	6	20	24	1.73
53329276--53329406	54	2.4	55	87	3	176	22	26	23	26	2.00
53331879--53332082	25	8.3	25	71	11	136	18	23	21	37	1.94
53331879--53332056	49	3.6	48	77	9	153	17	23	21	37	1.94
53331879--53332082	49	4.1	47	74	8	140	18	23	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53333335--53333434	39	2.6	39	86	0	146	27	13	26	34	1.93
53337251--53337290	15	2.5	16	88	12	64	20	0	0	80	0.72
53337254--53337288	5	6.8	5	93	6	61	17	0	0	82	0.66
53339685--53339721	13	2.7	14	84	16	51	35	0	0	64	0.94
53339673--53339720	20	2.4	20	83	13	55	35	0	0	64	0.94
53341662--53341691	14	2.1	14	100	0	60	30	6	6	56	1.51
53345488--53345520	5	6.6	5	100	0	66	60	0	0	39	0.97
53345771--53345815	23	2.0	23	95	0	81	37	8	26	26	1.86
53351897--53351991	30	3.4	27	78	17	88	36	0	2	61	1.08
53351920--53351991	29	2.6	27	81	18	94	34	0	1	63	1.03
53351965--53352000	16	2.3	16	90	4	56	41	0	0	58	0.98
53363464--53363527	30	2.2	28	83	8	74	53	1	1	43	1.19
53363434--53363522	41	2.2	41	81	4	108	52	2	1	43	1.20
53364264--53364305	15	2.9	14	86	10	57	26	0	19	54	1.44
53364410--53364483	29	2.4	32	80	13	84	25	4	20	50	1.66
53367236--53367299	26	2.4	26	82	12	85	15	4	3	76	1.08
53367342--53367403	24	2.7	23	78	16	65	35	0	1	62	1.05
53367342--53367403	22	2.7	22	75	25	58	35	0	1	62	1.05
53367353--53367433	35	2.3	34	85	10	110	38	0	0	61	0.96
53367388--53367447	21	2.8	22	87	7	79	40	0	0	60	0.97
53367687--53367739	18	3.0	17	80	5	52	50	0	5	43	1.25
53367729--53367771	13	3.2	13	74	6	50	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53370384--53370516	30	4.4	30	81	6	144	23	21	24	30	1.99
53370384--53370516	60	2.2	60	87	2	187	23	21	24	30	1.99
53373831--53373890	32	1.9	31	86	3	84	46	3	3	46	1.35
53374009--53374043	7	4.7	7	89	10	52	71	0	0	28	0.86
53374099--53374150	21	2.5	20	79	11	59	59	0	1	38	1.08
53374100--53374147	22	2.1	23	88	3	71	62	0	2	35	1.07
53374131--53374206	33	2.3	32	84	4	91	50	2	0	47	1.15
53374255--53374309	25	2.2	24	84	12	67	76	3	5	14	1.10
53380073--53380105	3	11.0	3	100	0	66	66	0	0	33	0.92
53388586--53388681	28	3.5	28	91	8	162	39	13	0	46	1.43
53388872--53388941	19	3.8	18	82	3	86	37	7	0	55	1.27
53388877--53388947	37	1.9	37	94	0	124	39	8	0	52	1.32
53389505--53389575	37	1.9	37	97	0	133	49	0	9	40	1.36
53389505--53389579	18	4.1	18	76	6	71	52	0	9	38	1.34
53389511--53389579	19	3.7	19	78	5	88	52	0	8	39	1.33
53389511--53389588	19	4.1	19	78	5	59	51	0	10	38	1.36
53389653--53389738	27	3.2	26	85	4	102	19	26	23	30	1.98
53389771--53389866	28	3.5	27	90	8	142	50	0	10	39	1.37
53389856--53389890	17	2.0	18	88	5	54	28	0	2	68	1.04
53390669--53390719	21	2.5	21	77	3	59	25	1	5	66	1.24
53392348--53392407	28	2.1	29	81	3	68	35	0	3	61	1.12
53406690--53406743	25	2.2	25	86	3	74	20	25	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53409023--53409078	25	2.2	25	78	6	60	32	17	30	19	1.95
53409109--53409161	27	2.0	26	81	3	61	35	15	24	24	1.94
53411258--53411332	39	1.9	39	94	5	134	17	25	8	49	1.73
53413065--53413293	53	4.3	54	77	9	202	28	21	15	34	1.94
53413100--53413294	106	1.8	107	81	5	243	29	23	15	32	1.95
53415272--53415579	109	2.9	109	91	1	496	30	17	17	34	1.93
53417136--53417185	21	2.4	21	79	0	55	6	10	10	74	1.23
53420397--53420449	14	3.6	14	75	7	52	33	1	1	62	1.17
53423407--53423470	18	3.9	17	73	15	55	51	0	23	25	1.48
53424696--53424789	49	1.9	49	86	0	134	43	5	23	27	1.75
53425283--53425404	23	5.2	23	81	5	136	42	19	10	27	1.84
53425282--53425404	48	2.6	48	84	1	158	42	19	10	27	1.84
53428335--53428519	42	4.5	42	81	5	191	30	20	22	26	1.98
53430724--53430748	13	1.9	13	100	0	50	40	24	4	32	1.73
53441491--53442002	152	3.4	153	86	4	732	25	18	21	34	1.96
53441491--53442002	75	6.7	77	88	2	732	25	18	21	34	1.96
53442536--53442636	30	3.4	30	83	4	125	28	17	4	48	1.68
53443209--53443235	10	2.7	10	100	0	54	92	0	0	7	0.38
53443209--53443239	11	2.9	11	95	4	55	90	0	0	9	0.46
53443227--53443274	20	2.5	19	90	6	78	79	0	14	6	0.92
53447613--53447833	10	22.7	9	67	23	94	34	1	3	60	1.23
53447709--53447833	21	6.2	22	67	23	62	34	0	2	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53447697--53447833	41	3.5	38	75	18	113	34	0	2	62	1.16
53447735--53447834	18	5.2	18	67	23	62	35	0	3	62	1.11
53456322--53456367	24	1.9	24	86	0	65	39	4	0	56	1.19
53459614--53459646	7	4.7	7	100	0	66	45	0	24	30	1.53
53460835--53460894	20	3.0	20	83	9	70	61	1	6	30	1.31
53460883--53460913	13	2.3	13	94	5	53	83	6	3	6	0.88
53461044--53461112	3	22.3	3	72	16	52	63	2	0	33	1.09
53461044--53461112	21	3.2	21	78	12	77	63	2	0	33	1.09
53461046--53461112	34	2.0	34	82	5	82	64	2	0	32	1.09
53461674--53461707	5	6.6	5	86	6	50	79	0	5	14	0.91

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