genome.fa.s16.2.7.7.80.10.50.1000.27.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  27  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)
7152938--7152996	29	2.0	29	83	0	73	37	32	8	22	1.84
7154168--7154270	9	11.6	9	93	2	154	26	10	20	42	1.84
7154148--7154270	27	4.5	27	88	3	149	26	10	21	42	1.85
7156679--7156745	3	22.3	3	87	0	98	62	1	2	32	1.19
7158145--7158189	18	2.6	17	83	13	56	28	2	2	66	1.15
7158880--7158985	43	2.5	43	81	3	133	21	16	31	30	1.96
7158999--7159164	86	1.9	86	87	0	242	28	31	17	22	1.97
7158999--7159184	43	4.3	43	81	4	205	30	31	17	21	1.96
7158999--7159184	86	2.2	86	85	1	239	30	31	17	21	1.96
7159040--7159228	86	2.2	88	82	3	222	31	27	15	24	1.96
7159528--7159619	21	4.4	21	85	0	103	5	43	17	33	1.72
7159590--7159755	66	2.5	66	84	3	201	12	29	18	39	1.87
7165178--7165681	9	57.3	9	67	20	112	38	1	14	45	1.56
7165183--7165302	16	7.9	16	66	19	69	33	1	17	47	1.58
7165197--7165252	25	2.2	25	96	0	103	37	0	12	50	1.41
7165262--7165316	25	2.2	25	83	0	65	29	1	20	49	1.59
7165276--7165336	25	2.4	25	83	0	77	34	1	18	45	1.59
7165358--7165390	16	2.1	16	100	0	66	30	0	24	45	1.53
7165254--7165395	34	4.2	33	68	16	87	37	2	18	42	1.62
7165376--7165703	34	10.0	34	71	22	195	39	1	11	46	1.51
7165393--7165442	17	2.9	17	67	21	50	44	4	6	46	1.47
7165449--7165518	22	2.9	24	85	10	81	38	0	11	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7165356--7165680	173	1.9	168	91	4	526	38	1	13	46	1.52
7165531--7165563	16	2.1	16	94	0	57	27	0	27	45	1.54
7165382--7165680	56	5.2	56	79	13	342	39	1	12	46	1.51
7165450--7165649	81	2.5	79	81	11	230	38	1	13	46	1.52
7165589--7165634	22	2.1	22	95	0	83	41	0	10	47	1.38
7165948--7165984	11	3.4	11	96	0	65	54	2	5	37	1.38
7167292--7167328	10	3.7	10	92	0	65	43	13	0	43	1.44
7167867--7167918	27	1.9	27	88	0	77	50	9	0	40	1.35
7167984--7168019	10	3.7	10	92	3	56	44	11	0	44	1.39
7170410--7170730	41	7.8	43	73	10	242	36	23	23	16	1.94
7170470--7170731	82	3.2	82	88	2	375	38	22	23	15	1.92
7176487--7176531	19	2.4	19	86	13	67	66	13	2	17	1.34
7177048--7177121	26	2.8	27	78	12	73	12	14	0	72	1.11
7177048--7177136	36	2.4	38	78	10	96	11	16	0	71	1.13
7179421--7179483	31	2.0	32	96	3	119	34	9	12	42	1.76
7181766--7181849	29	2.9	29	89	0	123	36	27	20	15	1.93
7186119--7186351	73	3.2	73	73	8	174	35	12	13	37	1.84
7188893--7188968	30	2.7	29	85	6	93	53	0	40	5	1.23
7188946--7188996	21	2.5	20	84	6	66	50	0	47	1	1.12
7188965--7189016	27	1.9	27	84	0	68	46	1	51	0	1.12
7195052--7195099	24	2.0	24	100	0	96	33	25	8	33	1.86
7195550--7195596	21	2.3	21	92	3	78	17	25	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7196106--7196140	18	1.9	18	100	0	70	40	51	0	8	1.33
7196081--7196139	23	2.5	23	86	2	73	42	45	1	10	1.48
7196255--7196313	18	3.3	18	82	0	73	27	8	20	44	1.80
7196255--7196313	9	6.6	9	76	7	57	27	8	20	44	1.80
7196254--7196313	27	2.2	27	84	0	75	26	8	21	43	1.81
7196472--7196496	12	2.1	12	100	0	50	16	24	36	24	1.94
7209873--7209906	17	1.9	18	88	5	52	26	11	5	55	1.58
7213647--7213686	20	2.0	20	100	0	80	30	25	15	30	1.95
7221767--7222296	44	11.9	44	78	6	521	31	17	23	27	1.97
7221767--7222298	89	6.0	89	92	0	859	31	17	23	27	1.97
7223893--7223926	17	1.9	18	88	5	52	26	11	5	55	1.58
7237406--7237447	19	2.2	19	83	8	50	45	2	4	47	1.36
7241278--7241592	108	2.9	109	91	2	485	33	17	17	31	1.93
7242093--7242155	9	7.2	9	74	13	51	71	3	1	23	1.09
7243410--7243506	41	2.4	41	92	0	158	22	28	20	27	1.99
7246193--7246224	12	2.7	12	95	0	55	6	31	12	50	1.65
7246465--7246634	44	3.9	43	68	17	107	28	22	18	30	1.97
7246465--7247076	132	4.6	132	85	5	777	29	23	17	28	1.97
7246533--7246736	44	4.6	44	65	13	114	27	25	17	28	1.98
7247070--7247209	45	3.2	44	66	15	117	22	28	22	26	1.99
7248520--7248572	12	4.5	11	81	9	61	0	15	1	83	0.74
7248520--7248567	10	4.5	11	82	10	55	0	16	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7251617--7251687	22	3.2	22	84	7	99	33	29	1	35	1.67
7251658--7251716	30	2.0	30	96	0	109	32	35	0	32	1.58
7251688--7251729	22	1.9	22	90	0	66	33	33	0	33	1.58
7251762--7251822	29	2.2	29	80	13	74	42	4	1	50	1.33
7251773--7251836	29	2.2	29	80	5	76	40	3	1	54	1.25
7251927--7251960	15	2.3	15	90	5	52	26	0	5	67	1.13
7254043--7254648	29	21.3	29	81	7	656	41	23	1	33	1.62
7254043--7254648	57	10.7	58	83	6	656	41	23	1	33	1.62
7254043--7254648	86	7.1	86	83	7	632	41	23	1	33	1.62
7258431--7258484	9	5.8	9	80	2	54	68	3	1	25	1.16
7260233--7260269	17	2.2	17	90	4	58	35	0	5	59	1.20
7267068--7267092	11	2.3	11	100	0	50	60	0	16	24	1.36
7270550--7270582	16	2.1	16	100	0	66	42	15	18	24	1.88
7278295--7278329	17	2.1	16	89	5	52	40	14	0	45	1.45
7295343--7295497	43	3.7	41	75	14	156	23	18	27	30	1.97
7299419--7299584	62	2.7	62	93	0	269	35	5	8	50	1.56
7300121--7300193	6	12.2	6	92	0	110	2	32	45	19	1.64
7300830--7300864	14	2.5	14	90	0	52	42	5	17	34	1.73
7303285--7303332	21	2.6	17	75	25	53	16	8	10	64	1.48
7304414--7304563	23	6.5	23	80	8	135	14	6	20	58	1.58
7304505--7304563	12	4.9	12	91	0	100	8	5	23	62	1.43
7304505--7304563	24	2.5	24	100	0	118	8	5	23	62	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7304426--7304562	68	2.1	67	84	6	181	14	6	20	58	1.58
7305029--7305277	113	2.2	114	94	2	446	44	5	2	46	1.39
7305079--7305549	131	3.7	127	77	15	478	46	4	2	46	1.36
7305259--7305293	16	2.2	16	100	0	70	25	0	0	74	0.82
7305368--7305396	5	6.0	5	92	8	51	58	0	0	41	0.98
7305449--7305502	23	2.3	25	75	18	62	55	3	3	37	1.35
7305497--7305536	16	2.5	17	92	8	59	27	0	0	72	0.85
7305270--7305565	119	2.6	108	85	9	346	46	4	2	46	1.34
7307313--7307454	71	2.0	71	98	0	275	27	19	21	30	1.98
7307948--7308051	49	2.1	49	92	0	172	30	8	9	50	1.65
7309452--7309494	16	2.8	16	96	3	79	48	0	6	44	1.29
7309404--7310243	120	7.0	120	91	3	1356	42	1	4	50	1.32
7309709--7309746	18	2.2	17	90	4	58	34	2	0	63	1.09
7309404--7310243	239	3.5	238	92	2	1375	42	1	4	50	1.32
7309830--7309864	18	2.0	17	88	5	52	42	2	0	54	1.15
7309404--7310236	359	2.3	355	91	3	1352	42	1	4	50	1.32
7310189--7310223	18	2.0	17	94	5	61	40	2	0	57	1.14
7310366--7310461	45	2.2	44	88	5	140	36	28	4	31	1.76
7310440--7310477	16	2.4	16	95	0	67	26	34	2	36	1.71
7310549--7310591	16	2.8	16	85	3	52	2	41	0	55	1.12
7310639--7310679	3	14.3	3	85	10	59	0	29	0	70	0.87
7315983--7316037	27	2.0	27	96	0	101	49	1	3	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7315994--7316037	13	3.3	13	75	6	52	52	0	2	45	1.13
7318676--7318703	10	2.8	10	100	0	56	0	10	17	71	1.14
7320156--7320189	17	1.9	18	88	5	52	26	2	26	44	1.69
7333745--7333777	12	2.6	13	90	4	50	54	0	3	42	1.15
7336392--7336423	16	2.0	16	100	0	64	68	0	0	31	0.90
7336804--7336835	11	2.9	11	95	0	55	28	31	0	40	1.57
7337990--7338022	7	4.7	7	100	0	66	27	0	15	57	1.38
7338519--7338586	30	2.3	30	86	0	91	35	41	13	10	1.78
7340055--7340487	97	4.4	96	88	6	611	39	18	1	41	1.60
7340048--7340449	193	2.1	193	90	1	637	39	18	1	40	1.61

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