genome.fa.s20.2.7.7.80.10.50.1000.105.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  105  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)
29708294--29708449	82	1.9	81	88	3	233	26	15	28	29	1.96
29708290--29708470	82	2.2	81	83	2	229	27	15	27	29	1.96
29716368--29716544	27	6.6	27	81	5	196	27	15	28	29	1.96
29716369--29716523	81	1.9	81	88	5	233	27	15	28	29	1.96
29716365--29716544	81	2.2	81	83	3	229	27	15	27	29	1.96
29732328--29732372	20	2.6	16	83	16	54	44	0	24	31	1.54
29737543--29737578	18	2.0	18	100	0	72	27	27	5	38	1.79
29738954--29738984	9	3.3	9	95	4	53	58	0	0	41	0.98
29739415--29739548	68	2.0	68	83	5	173	41	3	6	48	1.47
29739701--29739777	38	2.0	38	97	0	145	37	15	18	28	1.91
29744817--29744865	20	2.7	18	77	22	57	51	4	2	42	1.32
29749190--29749222	17	1.9	17	88	11	50	24	6	9	60	1.49
29751255--29751422	40	4.2	40	82	8	148	27	27	20	24	1.99
29751290--29751475	80	2.3	80	83	9	229	27	27	20	23	1.99
29751292--29751475	40	4.6	40	83	7	205	27	27	21	23	1.99
29756974--29757013	21	2.0	21	90	5	64	55	2	0	42	1.13
29758380--29758434	28	2.0	27	85	3	65	36	5	9	49	1.58
29758600--29758649	21	2.4	21	80	16	59	50	4	0	46	1.20
29763432--29763472	20	2.0	20	100	0	82	29	24	14	31	1.95
29767934--29767966	16	2.0	17	88	5	50	51	6	0	42	1.26
29768339--29768493	69	2.3	68	86	3	204	42	5	18	33	1.74
29768371--29768739	165	2.3	164	82	7	439	39	7	15	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29770317--29770391	24	3.1	24	77	7	89	6	9	57	26	1.55
29771072--29771119	3	16.0	3	95	0	87	33	2	0	64	1.05
29789938--29789989	27	1.9	27	84	0	68	28	11	30	28	1.92
29791811--29791871	27	2.3	27	88	0	95	31	26	18	24	1.97
29791823--29791887	27	2.4	27	81	0	67	29	24	20	26	1.99
29797840--29797896	29	2.0	29	96	0	105	31	14	3	50	1.59
29810288--29810312	12	2.1	12	100	0	50	84	0	0	16	0.63
29812270--29812626	44	8.1	44	82	4	315	29	19	17	33	1.94
29821795--29821887	40	2.3	40	96	0	168	25	22	27	23	2.00
29829629--29829888	40	6.6	39	83	8	233	25	21	27	25	1.99
29829748--29829925	79	2.2	80	80	3	191	25	21	28	24	1.99
29845910--29846087	27	6.6	27	85	3	214	30	28	14	26	1.95
29845931--29846086	82	1.9	81	89	3	242	30	28	14	26	1.95
29850717--29850784	29	2.3	29	82	0	73	27	20	17	33	1.95
29862787--29862865	37	2.1	37	88	4	115	25	30	18	25	1.98
29862984--29863738	47	16.1	47	94	0	1224	29	29	8	32	1.87
29866336--29866423	3	29.7	3	78	6	54	52	1	3	43	1.25
29866323--29866407	44	1.9	44	97	0	161	49	2	4	43	1.36
29875427--29875492	31	2.1	31	82	5	78	42	10	10	36	1.74
29876997--29877371	187	2.0	187	98	0	723	32	16	21	29	1.95
29883263--29883322	20	3.0	20	85	0	84	45	13	8	33	1.73
29883356--29883412	18	2.9	19	79	10	62	33	17	14	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29886256--29886299	23	2.0	22	86	8	63	65	6	6	20	1.39
29894254--29894345	20	4.6	20	72	14	73	45	15	7	31	1.74
29894359--29894407	19	2.7	18	80	3	53	32	8	16	42	1.77
29900878--29901013	68	2.0	68	92	0	227	33	30	10	25	1.89
29901183--29902276	544	2.0	546	98	0	2129	31	18	16	33	1.93
29903754--29903790	12	3.2	12	77	14	51	29	0	24	45	1.53
29904144--29904225	6	13.7	6	74	14	62	20	14	15	48	1.80
29906450--29906486	19	1.9	19	89	10	58	43	0	2	54	1.14
29910783--29910907	63	2.0	63	82	0	151	27	24	20	28	1.99
29911558--29911594	19	1.9	19	88	0	56	75	0	16	8	1.02
29912546--29912595	25	2.0	25	88	0	73	40	40	10	10	1.72
29915437--29915467	7	4.4	7	100	0	62	87	0	0	12	0.55
29917083--29917132	10	4.5	11	78	12	57	68	4	0	28	1.08
29917083--29917139	13	4.9	12	81	14	50	64	3	0	31	1.10
29917130--29917164	16	2.1	17	89	10	54	42	0	0	57	0.99
29921882--29921918	12	3.0	12	88	4	56	18	0	2	78	0.87
29937577--29937781	88	2.3	88	84	5	270	23	26	16	33	1.96
29937389--29937697	132	2.3	132	85	0	411	25	25	16	32	1.96
29937445--29937913	220	2.1	220	87	0	679	25	25	16	32	1.96
29937678--29942129	132	33.8	132	85	2	5805	26	24	18	30	1.97
29938076--29938442	88	4.2	87	72	12	302	26	24	19	29	1.98
29938247--29938355	44	2.5	44	89	5	159	28	28	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29938071--29938442	87	4.2	88	71	11	325	26	24	18	30	1.98
29938159--29938486	175	1.9	176	87	3	491	26	25	18	29	1.98
29940530--29940725	44	4.5	44	68	12	150	27	25	18	29	1.98
29941715--29941910	44	4.5	44	67	12	141	26	26	17	29	1.97
29941890--29942350	220	2.1	220	82	0	564	25	22	19	32	1.98
29942022--29942211	88	2.2	88	90	0	299	23	23	18	33	1.97
29942110--29944004	132	14.4	132	87	1	2573	26	23	18	31	1.97
29941758--29942482	352	2.1	352	86	1	1006	25	23	18	31	1.98
29941626--29942614	484	2.0	484	87	0	1424	25	23	18	32	1.97
29941498--29942735	616	2.0	616	90	0	1933	26	22	18	32	1.97
29944241--29944326	35	2.5	35	81	9	106	45	0	4	50	1.22
29944268--29944328	24	2.5	23	80	15	61	45	0	4	49	1.23
29945590--29945673	39	2.2	39	81	8	93	22	23	25	28	1.99
29951557--29951587	3	10.3	3	100	0	62	67	0	0	32	0.91
29952199--29952232	10	3.5	10	84	8	52	76	0	5	17	0.98
29952194--29952231	19	2.0	20	94	5	69	76	0	5	18	0.97
29952547--29952606	26	2.2	28	80	11	72	6	10	28	55	1.58
29952818--29952966	59	2.5	58	78	10	160	56	2	2	38	1.28
29954100--29954235	57	2.4	57	81	6	168	51	2	2	43	1.29
29957709--29957745	9	4.0	9	89	3	56	83	0	16	0	0.64
29957711--29957745	5	7.4	5	87	12	56	82	0	17	0	0.66
29958177--29958991	23	35.5	22	70	14	256	38	23	3	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29958172--29958991	46	17.9	46	76	6	502	38	23	3	33	1.73
29958227--29959049	230	3.6	230	94	0	1389	39	23	3	33	1.73
29965305--29965372	6	11.3	6	100	0	136	51	0	16	32	1.45
29973884--29973927	19	2.4	19	80	3	54	56	11	2	29	1.46
29976598--29976648	26	2.0	26	100	0	102	33	23	15	27	1.95
29976901--29977297	30	13.2	30	83	4	460	30	9	15	43	1.79
29976901--29977276	90	4.2	90	91	2	564	30	9	15	43	1.79
29983459--29983491	17	2.0	17	88	5	50	57	0	6	36	1.23
29984180--29984457	30	9.3	30	87	0	385	30	10	16	42	1.81
29984192--29984457	90	3.0	90	94	0	451	30	9	16	42	1.81
29984414--29984500	43	2.0	43	95	0	156	32	10	14	42	1.80
29984413--29984490	24	3.5	24	63	22	60	32	10	15	42	1.80
29984461--29984587	30	4.3	29	80	5	139	32	12	14	40	1.84
29984388--29984530	73	2.0	73	88	2	216	32	11	16	39	1.84
29984354--29984559	103	2.0	103	89	0	313	32	11	15	41	1.82
29984324--29984587	133	2.0	131	88	2	386	31	11	15	41	1.84
29994533--29994654	57	2.1	57	96	0	226	48	15	1	34	1.55
29995908--29995944	17	2.2	17	95	0	65	24	5	40	29	1.77
29996081--29996138	28	2.1	27	81	6	64	53	3	17	25	1.59
30001097--30001774	114	6.0	114	90	0	1025	23	21	25	28	1.99
30002364--30002428	14	4.6	14	76	0	58	23	0	40	36	1.55
30002496--30002567	26	2.7	27	77	10	76	23	0	41	34	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30002527--30002593	33	2.0	34	85	2	91	14	1	46	37	1.55
30002556--30002717	89	1.9	84	85	10	220	27	1	26	43	1.65
30002809--30002852	8	5.2	8	82	17	54	56	0	9	34	1.31
30002814--30002862	9	5.4	9	88	9	73	61	0	8	30	1.25
30002848--30002908	20	3.0	20	88	11	81	78	3	0	18	0.88
30002848--30002911	27	2.3	29	81	5	87	76	3	0	20	0.92
30002895--30002993	47	2.1	48	81	5	112	47	9	2	41	1.47
30003366--30003407	18	2.3	18	95	0	75	21	4	28	45	1.72
30005030--30005356	114	2.8	114	85	3	458	25	22	26	25	2.00
30005256--30005440	73	2.5	72	88	6	271	27	22	25	24	2.00

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