genome.fa.s16.2.7.7.80.10.50.1000.123.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  123  of  175  ( 20966 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)
38591809--38591984	45	3.9	45	86	3	230	36	28	13	21	1.91
38593414--38593471	28	2.1	28	100	0	116	13	20	39	25	1.90
38593955--38593993	20	2.0	20	90	10	62	33	10	5	51	1.58
38596328--38596408	36	2.2	36	78	4	92	29	7	25	37	1.83
38596703--38596754	17	2.9	18	80	5	61	34	9	23	32	1.87
38596695--38596757	18	3.6	18	80	4	74	33	9	26	30	1.88
38596747--38596780	17	2.0	17	94	0	59	26	0	41	32	1.56
38608391--38608463	26	2.8	27	81	6	87	28	19	9	42	1.82
38608612--38608653	12	3.5	12	78	12	50	21	21	0	57	1.41
38614135--38614216	41	2.0	41	100	0	164	29	14	31	24	1.95
38615422--38615484	33	1.9	32	84	12	83	60	3	1	34	1.22
38615445--38615504	31	1.9	31	83	6	77	60	5	3	31	1.35
38615697--38615725	14	2.1	14	100	0	58	44	6	6	41	1.58
38616370--38616414	17	2.6	18	76	20	51	53	0	2	44	1.13
38630733--38630897	91	1.8	90	85	3	233	34	16	20	27	1.95
38637423--38637497	27	2.8	26	86	13	107	48	9	0	42	1.35
38637624--38637892	4	66.0	4	74	20	165	71	0	28	0	0.89
38637635--38637936	43	6.8	46	77	16	302	70	0	29	0	0.91
38637637--38637888	84	3.0	83	91	5	395	71	0	28	0	0.89
38637625--38637921	53	5.5	53	74	17	245	71	0	28	0	0.89
38637814--38637941	22	5.2	25	69	18	65	71	0	28	0	0.86
38637838--38637943	28	3.8	28	75	10	92	70	0	29	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38637643--38637921	123	2.2	124	83	8	325	70	0	28	0	0.90
38638808--38639329	160	3.3	160	72	17	544	51	7	12	28	1.66
38638969--38639487	159	3.3	158	73	15	580	49	7	13	29	1.69
38638729--38639514	318	2.5	319	95	1	1407	49	7	12	30	1.69
38641472--38641509	3	12.7	3	100	0	76	68	31	0	0	0.90
38641582--38641620	20	2.0	21	85	10	55	66	10	0	23	1.22
38641767--38641851	27	3.1	27	84	0	116	17	29	27	25	1.98
38645171--38645225	24	2.2	26	81	12	71	45	0	1	52	1.11
38645363--38645457	45	2.1	44	86	9	131	32	26	5	35	1.79
38645438--38645489	16	3.2	16	86	0	68	34	32	0	32	1.58
38648301--38648533	54	4.1	54	74	14	234	42	1	7	47	1.42
38648316--38648401	28	3.1	27	65	24	63	46	2	8	43	1.46
38648403--38648454	15	3.6	15	80	12	56	44	0	1	53	1.11
38648355--38648570	120	1.8	120	100	0	432	42	1	6	49	1.38
38648532--38648573	15	2.7	16	82	14	52	45	0	2	52	1.13
38648523--38648564	15	2.9	15	82	10	52	47	0	0	52	1.00
38648684--38648793	45	2.6	43	79	11	120	32	29	5	32	1.80
38648774--38648841	16	4.2	16	98	0	118	35	36	0	27	1.58
38650420--38650469	23	2.3	22	83	13	59	8	6	6	80	1.04
38650587--38650628	9	4.7	9	84	0	57	28	11	23	35	1.91
38650682--38650709	9	3.1	9	100	0	56	46	10	10	32	1.73
38650923--38650982	30	2.0	31	86	3	86	20	40	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38651629--38651654	5	5.2	5	100	0	52	23	19	19	38	1.93
38650818--38652704	963	2.0	950	95	1	3409	36	19	6	37	1.77
38656144--38656184	21	2.0	21	100	0	82	24	19	34	21	1.97
38656456--38656514	30	2.0	30	93	0	100	32	30	0	37	1.58
38656547--38656612	30	2.2	31	94	2	116	34	0	0	65	0.93
38658925--38659272	30	11.8	30	88	3	535	46	24	0	28	1.58
38658925--38659272	59	5.9	60	89	3	535	46	24	0	28	1.58
38662471--38662748	122	2.3	123	94	2	479	34	20	16	29	1.94
38664301--38664530	43	5.3	43	91	0	334	28	30	17	22	1.97
38665448--38665963	160	3.2	160	94	1	901	40	23	5	30	1.77
38665752--38666052	114	2.6	112	90	4	444	41	22	5	30	1.76
38665448--38666064	23	27.0	23	74	10	432	40	23	5	30	1.77
38668998--38669119	41	3.0	41	86	0	163	31	24	20	23	1.98
38670190--38670228	20	2.0	20	89	0	60	41	12	5	41	1.65
38672725--38672798	37	2.0	37	100	0	148	40	13	8	37	1.74
38674101--38674136	15	2.5	14	86	8	54	44	8	0	47	1.33
38675828--38675877	22	2.3	22	82	6	57	22	10	44	24	1.83
38676024--38676081	27	2.3	27	88	8	86	74	0	5	20	1.01
38682460--38682497	15	2.6	15	91	4	60	47	7	0	44	1.32
38688088--38688119	7	4.6	7	100	0	64	68	0	0	31	0.90
38693380--38693903	260	2.0	261	96	0	960	33	17	15	34	1.91
38694484--38694540	30	1.9	30	96	0	105	19	22	14	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38702000--38702051	24	2.2	24	89	0	77	36	3	9	50	1.54
38706390--38706441	24	2.2	24	85	0	68	38	3	7	50	1.50
38706407--38706452	24	1.9	24	86	8	67	41	4	6	47	1.49
38711532--38711573	18	2.3	18	91	0	66	52	23	9	14	1.71
38716084--38716146	24	2.6	24	100	0	126	39	23	14	22	1.91
38721816--38721845	15	2.1	15	93	6	53	6	26	0	66	1.16
38722544--38722642	48	2.1	48	81	7	112	21	12	23	43	1.86
38724796--38724852	20	2.9	19	80	12	62	12	26	19	42	1.86
38740035--38740062	3	9.3	3	100	0	56	64	0	0	35	0.94
38749387--38749429	14	3.0	13	83	16	50	27	2	9	60	1.40
38749959--38750014	27	2.1	27	93	0	94	21	30	23	25	1.99
38752980--38753216	85	2.8	85	88	1	334	34	24	17	23	1.96
38753017--38753216	43	4.7	42	80	7	217	35	25	17	22	1.95
38755548--38755777	76	3.0	77	87	3	322	54	11	7	26	1.62
38755994--38756088	33	2.9	33	88	3	147	22	9	50	17	1.75
38755994--38756121	66	1.9	66	82	6	161	24	10	47	17	1.79
38755983--38756138	66	2.4	66	76	10	158	23	10	46	19	1.80
38756549--38756590	17	2.4	18	76	11	52	35	11	21	30	1.90
38756693--38756720	13	2.2	13	100	0	56	71	0	14	14	1.15
38757738--38757797	26	2.3	26	85	5	86	16	21	23	38	1.93
38757804--38757856	25	2.2	24	80	6	63	18	30	20	30	1.97
38760346--38760404	26	2.4	25	91	8	95	42	11	0	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38760462--38760540	27	2.9	27	88	0	113	29	22	31	16	1.96
38760584--38760732	4	37.0	4	75	15	123	69	0	28	1	0.96
38760586--38760739	46	3.4	46	72	14	81	69	0	29	1	0.97
38760669--38760758	46	2.0	46	82	12	114	71	0	27	1	0.94
38760710--38760764	18	3.1	18	72	15	51	69	0	30	0	0.89
38760597--38760796	75	2.6	74	82	12	219	69	0	30	1	0.96
38760597--38760758	42	4.0	41	76	15	158	69	0	29	1	0.96
38761514--38761569	27	2.1	27	93	0	94	44	14	32	8	1.76
38763044--38763068	7	3.6	7	100	0	50	40	44	0	16	1.47
38766491--38766535	18	2.5	18	92	0	72	15	48	4	31	1.65
38767359--38767420	3	20.7	3	93	0	106	64	3	0	32	1.09
38767479--38767517	19	2.0	21	85	10	55	69	12	0	17	1.19
38767670--38767729	27	2.2	27	87	0	84	20	33	21	25	1.97
38767787--38767878	28	3.4	28	93	3	161	51	0	10	38	1.37
38768901--38769333	104	4.2	104	84	10	543	54	15	0	30	1.44
38769306--38769470	72	2.3	72	95	0	294	53	16	0	28	1.48
38769726--38769767	3	14.3	3	95	5	77	0	30	0	69	0.89
38770305--38770334	6	5.0	6	95	0	51	16	13	0	70	1.18
38775109--38775230	44	2.7	44	80	8	131	27	23	18	30	1.97
38774840--38775607	217	3.6	215	84	4	954	27	22	19	29	1.98
38775495--38775606	44	2.5	44	81	2	118	28	24	19	27	1.99
38789818--38790080	40	6.7	40	86	7	301	25	26	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38789818--38790080	118	2.2	122	82	9	330	25	26	22	25	2.00
38797844--38798066	79	2.8	78	82	9	265	24	27	22	25	2.00
38797844--38798066	39	5.7	40	86	8	266	24	27	22	25	2.00
38800193--38800241	20	2.5	20	73	3	55	30	0	4	65	1.11
38808145--38808578	146	3.0	144	94	2	751	35	14	17	32	1.90
38809325--38809351	3	9.0	3	100	0	54	33	33	0	33	1.58
38813476--38813703	84	2.7	83	78	14	236	47	12	7	32	1.70
38813543--38813703	84	1.9	86	87	7	240	49	11	6	32	1.66
38813666--38813925	86	3.0	86	88	4	333	43	11	13	31	1.80
38813670--38813954	86	3.3	85	84	6	254	43	11	13	31	1.80

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