genome.fa.s17.2.7.7.80.10.50.1000.135.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  135  of  185  ( 22116 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)
41831802--41831844	21	2.0	21	90	4	68	30	2	46	20	1.63
41841734--41841803	20	3.8	18	67	17	54	62	4	2	30	1.28
41842233--41842306	31	2.4	31	82	10	89	63	2	0	33	1.09
41853516--41853570	24	2.2	25	83	6	67	58	10	14	16	1.64
41856998--41857043	23	2.0	23	95	0	83	34	23	0	41	1.55
41858311--41858358	24	2.0	24	95	0	87	20	14	25	39	1.91
41861533--41861572	16	2.5	16	84	11	55	40	2	17	40	1.63
41870121--41870175	22	2.5	22	80	11	76	25	30	23	20	1.98
41873412--41873504	11	8.9	11	69	25	60	41	2	1	54	1.19
41873436--41873470	17	2.0	17	88	5	52	45	0	0	54	0.99
41873423--41873506	30	2.8	31	80	8	86	42	2	1	53	1.21
41876804--41876873	19	3.7	19	80	1	79	28	7	1	62	1.30
41876898--41876963	19	3.4	19	80	2	78	25	3	1	69	1.11
41876804--41876963	10	16.7	9	65	18	56	31	5	1	62	1.24
41879748--41879812	15	4.1	15	80	13	60	55	1	1	41	1.18
41879738--41879812	32	2.5	29	75	12	78	50	1	2	45	1.24
41879748--41879812	32	2.1	31	85	2	85	55	1	1	41	1.18
41879748--41879805	15	3.8	14	80	15	62	53	1	1	43	1.21
41884585--41884651	18	3.6	18	84	7	89	47	0	0	52	1.00
41884563--41884666	38	2.8	38	83	1	129	51	0	0	47	1.07
41884584--41884659	19	4.1	18	77	15	75	46	0	0	53	1.00
41890355--41890413	26	2.3	25	80	5	64	32	10	11	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41895345--41895406	26	2.4	26	83	0	79	33	14	11	40	1.82
41896503--41896567	28	2.2	30	81	13	89	40	4	12	43	1.63
41896515--41896571	28	2.0	28	100	0	114	35	3	10	50	1.54
41897352--41897433	30	2.8	29	87	3	119	40	3	20	35	1.70
41903849--41903917	25	2.7	25	76	12	70	24	26	18	30	1.98
41904037--41904166	62	2.1	62	100	0	260	43	12	14	30	1.82
41908884--41908919	19	1.9	18	88	5	54	16	11	0	72	1.12
41909709--41909749	18	2.3	18	91	0	64	31	7	0	60	1.24
41909684--41909749	3	22.0	3	73	11	55	31	4	1	62	1.25
41914332--41914388	25	2.3	25	78	0	69	28	24	19	28	1.98
41915806--41915903	24	4.0	24	76	7	90	20	27	17	34	1.95
41915943--41915990	24	2.0	23	88	4	69	18	16	20	43	1.88
41915969--41916077	49	2.2	50	83	3	132	20	22	19	38	1.93
41915969--41916090	25	5.0	25	71	13	83	18	22	19	39	1.93
41920210--41920456	76	3.2	76	83	0	314	24	18	21	36	1.95
41920210--41920456	36	6.5	39	70	14	138	24	18	21	36	1.95
41921968--41922002	17	2.1	17	88	0	52	54	0	14	31	1.40
41922075--41922101	13	2.1	13	100	0	54	29	0	37	33	1.58
41927388--41927426	20	1.9	21	89	5	62	25	7	20	46	1.77
41933403--41933462	31	1.9	31	89	0	93	33	13	8	45	1.73
41934175--41934228	6	9.0	6	97	0	99	81	0	0	18	0.69
41934313--41934357	19	2.4	19	88	7	65	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41936990--41937047	22	2.9	18	75	20	62	31	5	12	51	1.61
41937439--41937514	33	2.3	33	83	0	89	26	1	48	23	1.59
41940587--41940625	16	2.4	16	100	0	78	25	0	41	33	1.56
41940649--41941063	211	2.0	210	90	2	663	38	14	10	35	1.81
41943642--41943703	31	2.0	32	96	3	117	43	14	9	32	1.78
41949245--41949291	21	2.2	21	88	0	67	2	10	17	70	1.26
41949240--41949315	33	2.3	33	97	0	143	1	10	14	73	1.15
41949242--41949303	12	5.4	12	77	11	58	1	11	16	70	1.23
41951534--41951578	23	2.0	23	86	4	65	68	0	6	24	1.13
41951723--41951807	39	2.2	38	76	21	88	35	1	7	56	1.34
41963182--41963262	35	2.3	35	100	0	162	50	9	19	19	1.75
41973026--41973312	153	1.9	153	90	1	459	38	17	5	39	1.72
41976311--41976373	31	2.0	31	100	0	126	25	26	12	34	1.92
41980707--41980847	54	2.6	53	85	7	187	19	15	19	45	1.86
41980707--41980831	27	4.7	27	87	4	173	20	16	19	44	1.86
41980707--41980847	27	5.3	26	86	4	165	19	15	19	45	1.86
41983439--41983534	37	2.6	37	80	8	106	31	22	1	44	1.60
41986201--41986242	20	2.1	20	86	0	57	42	4	2	50	1.36
41989669--41989715	4	11.8	4	95	0	85	51	23	0	25	1.49
41994820--41994868	24	2.0	24	100	0	98	36	18	8	36	1.81
42004525--42004556	17	1.9	17	93	6	57	43	0	25	31	1.55
42011269--42011366	23	4.3	23	89	2	153	31	25	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42011276--42011364	45	2.0	45	93	0	151	31	25	22	20	1.98
42015260--42015446	41	4.6	41	93	1	295	24	19	22	33	1.97
42015263--42015446	81	2.3	83	91	2	293	25	19	22	32	1.97
42015264--42015501	122	2.0	122	82	5	293	24	18	24	31	1.98
42018301--42018342	22	1.9	22	95	0	75	59	4	19	16	1.54
42018945--42018986	22	1.9	22	100	0	84	42	9	11	35	1.74
42020124--42020285	4	38.8	4	72	19	61	69	0	30	0	0.94
42020126--42020281	10	15.9	10	69	17	71	68	0	30	0	0.94
42020163--42020277	31	3.8	31	72	11	85	69	0	29	0	0.94
42020122--42020254	41	3.3	41	88	5	182	68	0	30	0	0.95
42020115--42020286	65	2.7	61	81	9	159	67	0	31	0	0.95
42020122--42020285	41	4.0	41	86	7	178	68	0	30	0	0.94
42020650--42021560	160	5.8	153	75	15	736	50	7	11	30	1.65
42020650--42021795	317	3.7	317	88	5	1542	50	6	10	31	1.63
42021578--42021619	21	2.0	22	85	4	59	57	4	2	35	1.33
42026734--42026771	20	1.9	20	94	0	67	65	5	2	26	1.27
42039427--42039551	50	2.5	47	78	13	126	36	14	25	24	1.93
42040712--42040746	17	2.1	16	94	5	61	31	17	14	37	1.89
42044463--42044549	43	2.0	43	100	0	174	34	18	16	31	1.93
42059549--42059596	18	2.7	18	83	6	62	16	22	20	39	1.92
42064568--42064592	13	1.9	13	100	0	50	32	4	24	40	1.73
42066886--42067127	43	5.7	43	79	10	239	23	17	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42066886--42067044	85	1.9	86	87	1	239	22	19	27	31	1.98
42067011--42067119	41	2.6	42	74	10	105	27	15	25	31	1.96
42070525--42070563	20	2.0	20	85	10	53	46	10	0	43	1.37
42072237--42072284	24	2.0	24	100	0	96	25	16	25	33	1.96
42072240--42072294	24	2.3	24	87	0	74	29	14	21	34	1.93
42074781--42074807	14	1.9	14	100	0	54	55	7	14	22	1.64
42075642--42075891	24	10.7	24	72	13	155	34	5	4	55	1.43
42075646--42075866	45	4.8	46	69	13	55	34	6	4	54	1.46
42075608--42075881	69	4.0	69	75	13	217	35	5	4	54	1.44
42075840--42075877	17	2.2	18	85	4	51	36	0	0	63	0.95
42085551--42085593	18	2.4	18	88	0	59	44	44	2	9	1.49
42085697--42085781	9	9.4	9	78	0	89	25	12	22	38	1.90
42088393--42088428	15	2.5	14	86	8	54	44	8	0	47	1.33
42089634--42089686	19	2.8	19	80	11	72	16	7	7	67	1.38
42092724--42092809	45	1.9	45	90	0	136	40	13	20	24	1.89
42092962--42093053	27	3.4	27	77	5	114	33	10	28	27	1.90
42100547--42100648	27	3.8	27	85	0	141	32	18	29	19	1.96
42101826--42101874	11	4.3	12	82	14	52	69	14	10	6	1.35
42103799--42103827	9	3.0	10	90	10	51	17	20	0	62	1.33
42104053--42104309	128	2.0	128	100	0	514	28	20	11	40	1.87
42105695--42105815	31	3.9	31	85	0	161	40	6	19	33	1.77
42105747--42105801	17	3.4	17	68	14	53	40	5	21	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42108370--42108406	9	4.0	9	86	6	56	54	13	0	32	1.40
42110212--42110256	24	1.9	23	90	4	72	66	0	11	22	1.22
42114725--42114918	51	3.8	51	79	3	214	30	27	17	23	1.97
42114732--42114916	101	1.8	101	89	5	293	31	27	17	23	1.97
42136598--42136644	21	2.2	21	77	7	51	44	0	2	53	1.12
42136666--42136702	18	2.2	18	90	9	60	48	0	0	51	1.00
42136667--42136723	20	3.1	18	83	14	64	45	1	0	52	1.11
42141217--42141347	65	2.0	65	100	0	262	27	22	7	41	1.81
42143431--42143513	41	2.0	40	88	6	123	25	1	28	44	1.62
42143550--42143648	34	2.9	34	72	11	96	41	1	13	44	1.50

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