genome.fa.s20.2.7.7.80.10.50.1000.53.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  53  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)
15549335--15549392	20	2.8	21	75	12	66	55	5	1	37	1.33
15550732--15550799	22	3.3	22	67	23	65	30	4	13	51	1.60
15552035--15552273	41	5.8	40	73	6	196	17	25	22	34	1.96
15552036--15552273	82	2.9	82	86	3	320	17	25	22	34	1.96
15552748--15552785	15	2.5	15	86	0	58	21	0	42	36	1.53
15552721--15552788	15	4.9	14	74	13	52	23	0	35	41	1.55
15554202--15554242	18	2.3	18	87	4	57	24	0	43	31	1.54
15554633--15554684	27	1.9	27	84	0	68	42	0	9	48	1.36
15557500--15557552	21	2.5	21	84	9	72	39	1	1	56	1.21
15557637--15557677	13	2.8	15	85	14	59	46	19	0	34	1.50
15557729--15558045	25	12.4	25	73	15	181	46	19	2	31	1.64
15557749--15558102	9	41.3	9	72	16	254	44	19	2	32	1.65
15557749--15557859	43	2.6	41	84	8	141	48	20	0	30	1.50
15557749--15557847	52	1.9	52	91	0	162	47	22	0	30	1.51
15557829--15558043	59	3.6	59	93	1	358	45	18	3	32	1.66
15558011--15558075	25	2.6	25	85	4	78	43	20	4	32	1.72
15557792--15558075	118	2.4	119	82	9	382	44	19	3	32	1.67
15557816--15558075	59	4.4	59	89	3	326	44	18	3	33	1.67
15564564--15564602	16	2.4	16	91	0	60	48	2	12	35	1.55
15564540--15564604	34	1.9	34	83	0	85	46	4	15	33	1.66
15566565--15567338	44	17.7	43	73	7	239	27	21	19	31	1.97
15566575--15567338	218	3.5	218	92	1	1230	27	21	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15567000--15567346	131	2.6	130	74	8	344	26	20	20	31	1.98
15567096--15567291	87	2.3	87	79	5	220	27	20	20	32	1.97
15568563--15568596	7	5.0	7	92	7	61	14	14	0	70	1.17
15569370--15569501	60	2.2	60	83	10	157	9	14	5	71	1.29
15569376--15569484	54	2.0	53	82	8	132	10	12	5	71	1.29
15570598--15570624	12	2.2	12	100	0	54	37	0	40	22	1.54
15573519--15573544	13	2.0	13	100	0	52	61	7	0	30	1.24
15573657--15573711	20	2.8	19	73	10	58	52	1	5	40	1.35
15573804--15573828	5	5.0	5	100	0	50	80	0	0	20	0.72
15574960--15574999	21	1.9	21	89	0	62	35	20	40	5	1.74
15575334--15575802	43	10.9	43	84	2	566	23	21	25	29	1.99
15578561--15578613	25	2.1	25	100	0	106	22	16	11	49	1.78
15581570--15581939	125	3.0	124	81	8	391	30	15	22	31	1.95
15583447--15583593	25	6.1	25	81	10	180	45	14	0	40	1.45
15584025--15584064	18	2.2	18	90	0	62	40	5	32	22	1.76
15584715--15584747	7	4.7	7	100	0	66	57	15	0	27	1.38
15584917--15584954	20	1.9	20	84	10	51	55	7	2	34	1.43
15585979--15586055	11	6.9	11	77	16	63	42	1	28	27	1.63
15585979--15586055	22	3.5	22	78	16	79	42	1	28	27	1.63
15585979--15586054	34	2.3	34	80	17	88	42	1	28	27	1.64
15586585--15586644	23	2.7	22	84	7	68	68	0	15	16	1.22
15587765--15588079	94	3.4	93	80	3	290	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15587913--15588450	44	11.6	44	66	19	186	28	18	19	33	1.95
15587819--15588130	94	3.3	93	84	2	365	29	17	20	32	1.96
15588014--15588362	141	2.5	138	81	2	394	29	17	19	33	1.95
15588007--15588450	138	3.2	137	77	6	396	28	18	18	34	1.95
15588286--15588544	94	2.8	94	83	1	295	27	20	18	34	1.95
15588476--15588590	44	2.6	43	81	8	124	28	17	19	34	1.94
15587808--15588633	232	3.5	231	76	9	610	29	19	18	33	1.95
15592967--15593017	25	2.0	26	88	3	77	25	7	15	50	1.71
15592932--15593043	56	2.0	55	81	5	127	29	7	15	48	1.71
15593022--15593394	61	6.1	61	78	10	325	31	8	17	42	1.79
15593066--15593369	31	9.9	31	76	10	268	31	7	17	43	1.77
15592991--15593369	92	4.1	92	88	3	507	31	7	17	43	1.78
15593036--15593394	31	11.7	30	78	8	217	31	7	18	42	1.78
15597947--15598819	114	7.7	113	87	1	1158	33	21	20	24	1.97
15599235--15599299	21	3.1	21	70	22	55	20	1	40	38	1.62
15599323--15599351	15	1.9	15	100	0	58	20	3	34	41	1.69
15599492--15599535	21	2.1	21	83	8	54	25	0	36	38	1.56
15599632--15599688	23	2.5	23	80	8	64	24	1	33	40	1.66
15600198--15600546	191	1.8	191	89	0	554	19	24	14	41	1.89
15602423--15602455	13	2.5	13	95	0	57	36	9	6	48	1.60
15602451--15602489	16	2.5	15	88	8	60	41	0	5	53	1.23
15602548--15602894	9	37.9	9	75	7	270	48	15	3	32	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15602552--15602843	92	3.3	89	78	12	287	48	15	3	32	1.63
15602552--15602894	147	2.3	147	93	2	582	48	15	3	32	1.62
15605568--15605638	21	3.4	20	78	3	70	32	18	46	2	1.63
15605955--15606158	42	4.8	42	88	1	291	36	20	23	20	1.95
15607268--15607312	14	3.2	15	79	20	53	0	26	11	62	1.29
15617274--15617406	65	2.0	65	81	2	151	6	31	14	47	1.70
15622764--15622817	23	2.3	24	78	9	58	51	1	1	44	1.22
15629486--15629596	33	3.4	33	79	6	91	34	16	23	26	1.95
15629381--15629577	105	1.9	105	83	2	261	33	15	23	27	1.95
15657655--15657721	17	3.8	16	78	16	62	68	1	0	29	0.98
15657666--15657742	25	2.8	26	80	11	84	67	0	1	31	0.99
15657655--15657752	9	10.6	9	72	19	60	68	2	1	28	1.07
15657794--15657840	20	2.3	20	78	7	51	59	2	2	36	1.21
15658391--15658490	10	10.1	10	74	15	66	31	1	7	61	1.29
15658395--15658491	39	2.5	39	79	12	110	29	1	7	61	1.29
15665460--15665503	22	2.0	22	86	0	61	52	0	0	47	1.00
15666300--15666488	20	9.5	20	68	7	71	41	16	7	34	1.76
15666294--15666365	19	3.7	19	70	7	56	41	20	4	33	1.72
15666294--15666394	39	2.6	38	79	7	94	40	18	4	35	1.73
15666933--15666989	25	2.2	26	78	3	62	49	7	21	22	1.73
15668956--15669003	24	2.0	25	83	4	62	47	6	18	27	1.72
15669329--15669420	48	1.9	48	84	4	123	31	31	10	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15672107--15672197	40	2.3	39	83	9	112	42	13	6	37	1.70
15672125--15672258	20	6.7	20	69	3	65	41	12	5	40	1.65
15672125--15672209	40	2.1	40	82	4	100	41	15	4	38	1.68
15672312--15672462	20	7.6	20	73	7	83	39	13	5	41	1.68
15672312--15672462	40	3.8	40	72	11	123	39	13	5	41	1.68
15672309--15672498	80	2.4	80	78	12	194	38	14	6	40	1.72
15672575--15672632	20	2.9	20	76	0	62	37	13	3	44	1.61
15672555--15672651	40	2.5	40	76	15	112	37	12	3	47	1.57
15672576--15672659	20	4.3	19	72	10	55	34	13	3	48	1.59
15672674--15672722	25	1.9	25	84	12	64	44	10	6	38	1.63
15672865--15672919	16	3.4	16	89	0	92	40	7	23	29	1.81
15672901--15672994	44	2.1	45	84	5	120	38	4	21	36	1.73
15678599--15678647	20	2.5	20	76	6	55	53	2	2	42	1.24
15681844--15681912	15	4.6	15	90	0	66	18	1	4	75	1.05
15681831--15681899	5	14.0	5	90	3	113	20	1	0	78	0.83
15685439--15685480	21	2.0	21	100	0	84	28	9	14	47	1.75
15686095--15686181	41	2.1	41	85	4	113	26	18	25	29	1.98
15694956--15694985	15	2.0	15	100	0	60	20	6	33	40	1.78
15695460--15695510	26	1.9	26	88	11	77	19	15	11	52	1.73
15698940--15699005	32	2.1	30	81	10	71	50	10	1	37	1.47
15699714--15699756	21	2.1	21	91	4	70	39	0	6	53	1.28
15707534--15707608	26	2.9	25	86	5	96	44	12	13	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15707604--15707946	173	2.0	173	94	0	605	41	12	18	27	1.87
15709977--15710179	40	5.1	40	81	2	203	46	24	13	15	1.82
15709971--15710179	79	2.6	80	77	3	217	45	24	13	15	1.82
15712762--15712820	16	3.7	16	73	13	50	49	1	1	47	1.21
15714504--15714534	16	1.9	16	93	0	53	77	6	6	9	1.12
15716602--15716661	29	2.0	30	90	3	95	46	15	6	31	1.71
15716703--15716735	17	1.9	17	93	0	57	54	9	0	36	1.32
15717994--15718030	3	12.3	3	100	0	74	0	32	0	67	0.91
15728212--15728261	5	10.2	5	79	12	59	62	2	0	36	1.07
15728211--15728260	15	3.2	16	83	11	68	60	2	0	38	1.09

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