genome.fa.s16.2.7.7.80.10.50.1000.33.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  33  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)
8855126--8855178	18	2.9	17	75	10	52	56	32	1	9	1.42
8856383--8856414	3	10.7	3	100	0	64	0	0	31	68	0.90
8856782--8856820	18	2.2	17	90	4	60	12	5	7	74	1.20
8856930--8857455	111	4.9	111	89	4	772	31	14	18	35	1.91
8858870--8858912	19	2.3	18	84	15	52	20	23	13	41	1.88
8861279--8861315	19	1.9	19	94	0	65	75	0	24	0	0.80
8862536--8864052	88	17.2	88	88	1	2036	27	24	23	24	2.00
8864051--8864341	132	2.2	132	86	1	395	32	18	21	26	1.97
8864341--8864602	49	5.3	49	69	11	194	34	23	20	20	1.97
8864381--8864742	50	7.3	50	72	8	290	33	24	20	21	1.97
8864341--8864742	99	4.1	99	88	2	558	34	24	20	20	1.97
8864677--8864804	66	1.9	66	85	3	177	34	24	18	22	1.96
8864812--8865121	44	7.2	44	63	20	136	27	17	22	31	1.97
8864795--8865123	126	2.6	125	88	5	462	28	17	22	31	1.96
8866773--8866815	3	14.3	3	95	0	77	32	0	2	65	1.06
8867157--8867195	18	2.2	17	90	4	60	12	5	7	74	1.20
8867310--8867724	110	3.8	109	93	2	647	30	15	19	34	1.92
8868061--8868110	14	3.6	14	81	7	50	28	2	4	66	1.21
8868100--8868159	18	3.6	17	76	19	72	23	6	3	66	1.30
8868834--8868883	14	3.6	14	81	7	50	28	2	4	66	1.21
8868873--8868932	18	3.6	17	76	19	72	23	6	3	66	1.30
8867811--8869429	773	2.1	773	98	0	3150	32	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8872348--8872385	17	2.2	17	100	0	76	39	5	21	34	1.76
8876927--8876985	14	4.2	14	78	8	50	22	5	3	69	1.23
8878434--8878468	18	2.0	17	94	5	61	57	0	0	42	0.99
8878520--8878555	5	7.2	5	100	0	72	41	19	19	19	1.90
8879310--8879367	30	1.9	30	85	0	80	44	0	36	18	1.50
8879434--8879685	126	2.0	126	98	1	488	30	0	46	23	1.53
8880650--8880684	18	2.0	17	94	5	61	42	0	0	57	0.99
8880950--8880989	19	2.0	21	85	14	57	57	0	0	42	0.98
8901681--8901722	18	2.3	18	81	18	52	33	7	2	57	1.39
8904900--8904928	5	5.8	5	100	0	58	20	0	17	62	1.33
8911401--8911505	54	2.0	53	84	1	138	21	29	23	24	1.99
8914181--8914300	42	2.9	42	76	5	125	25	28	31	14	1.94
8914087--8914357	146	1.9	146	88	3	411	26	24	28	19	1.99
8918157--8918586	27	16.2	27	81	3	426	44	20	15	19	1.87
8918354--8918540	100	1.9	100	84	2	250	44	18	14	22	1.86
8921975--8922169	85	2.3	86	80	8	220	31	25	14	28	1.95
8921974--8922220	43	5.7	44	75	10	204	31	24	14	29	1.95
8927010--8927064	22	2.5	22	84	0	74	23	20	18	38	1.93
8933714--8933832	45	2.6	45	81	5	125	42	16	19	21	1.90
8933932--8934103	46	3.8	46	83	3	179	47	13	19	19	1.83
8936961--8936988	7	4.0	7	100	0	56	0	14	0	85	0.59
8940855--8941040	35	5.4	34	78	8	162	22	27	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8940921--8941023	34	3.0	34	79	8	127	24	26	19	30	1.98
8940891--8941040	69	2.2	69	87	0	210	23	26	18	32	1.97
8940926--8941040	34	3.4	34	76	11	117	22	26	19	32	1.97
8948972--8949005	5	6.8	5	93	0	59	35	0	2	61	1.11
8956119--8956210	35	2.6	35	80	0	112	27	17	29	26	1.97
8959259--8959352	25	3.8	25	82	2	109	25	21	22	30	1.98
8960086--8960122	9	4.1	9	89	0	56	43	13	13	29	1.82
8966060--8966120	28	2.2	28	88	5	88	39	4	3	52	1.39
8970391--8970418	13	2.2	13	100	0	56	42	0	14	42	1.45
8979542--8979633	25	3.7	25	79	2	96	29	16	21	32	1.95
8996074--8996162	25	3.6	25	85	0	124	28	21	22	28	1.99
8997157--8997186	5	6.0	5	100	0	60	60	0	0	40	0.97
9014192--9014246	27	2.0	27	82	6	67	61	10	12	14	1.56
9014296--9014334	13	2.7	15	88	7	55	66	5	23	5	1.32
9016131--9016173	22	1.9	23	86	13	63	37	20	13	27	1.91
9021366--9021432	25	2.7	25	88	9	109	37	11	28	22	1.90
9021805--9021909	52	2.0	53	84	1	140	34	15	17	33	1.91
9022409--9022547	43	3.2	43	70	11	131	20	32	25	22	1.98
9022388--9022546	86	1.8	86	89	0	246	21	31	25	21	1.98
9022563--9022775	42	5.0	43	69	8	130	23	31	25	19	1.98
9022563--9022791	85	2.7	85	84	1	298	24	31	24	19	1.98
9022583--9022801	42	5.2	42	67	9	122	23	31	25	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9022563--9022874	85	3.7	84	77	4	275	24	30	24	21	1.99
9022563--9022877	170	1.9	170	81	1	389	23	30	23	22	1.99
9023519--9023554	18	1.9	19	94	5	65	30	33	8	27	1.86
9037646--9037776	43	3.1	43	72	10	133	23	30	28	17	1.97
9037646--9037839	42	4.6	42	71	11	135	21	29	29	19	1.97
9037646--9037882	85	2.8	85	82	1	296	21	29	28	20	1.98
9040271--9040356	41	2.1	41	95	0	154	55	17	8	18	1.65
9048080--9048132	26	2.0	27	85	7	72	69	5	22	1	1.19
9055199--9055454	45	5.6	46	75	8	177	44	13	19	22	1.86
9065685--9065849	89	1.9	89	88	2	251	33	16	12	36	1.87
9068952--9069045	44	2.1	45	92	2	154	29	27	13	28	1.94
9069278--9069484	89	2.3	89	93	0	351	28	21	19	30	1.97
9069218--9069482	44	6.0	44	72	2	163	27	22	18	31	1.97
9069290--9069450	45	3.6	45	74	1	171	23	23	20	32	1.98
9081395--9081429	3	11.7	3	93	0	61	62	0	2	34	1.10
9087092--9087135	22	2.0	24	82	13	58	63	11	4	20	1.44
9087687--9087719	15	2.3	15	89	5	50	51	0	3	45	1.16
9090199--9090240	21	2.0	20	82	13	50	50	21	7	21	1.72
9091477--9091552	35	2.1	35	87	2	107	42	28	14	14	1.85
9091487--9091558	35	2.1	35	94	0	126	38	27	16	16	1.90
9099723--9099775	15	3.6	14	80	7	61	50	13	0	35	1.41
9101651--9101707	6	9.3	6	78	3	60	21	3	1	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9102513--9102572	30	2.1	28	84	6	75	36	10	8	45	1.68
9102550--9102635	37	2.3	38	84	6	104	39	6	2	51	1.42
9106685--9106717	12	2.8	12	90	4	50	81	3	15	0	0.80
9106685--9106734	17	3.0	16	85	8	64	80	4	14	2	0.95
9107609--9108161	50	11.1	50	71	5	276	32	20	19	27	1.97
9107609--9108066	99	4.6	101	78	6	504	31	20	20	26	1.97
9107585--9108066	199	2.4	199	90	0	759	31	21	20	27	1.98
9107596--9108161	100	5.7	101	76	6	490	32	20	19	27	1.97
9108221--9109078	44	19.5	44	65	10	230	28	18	25	28	1.98
9108163--9109216	132	8.0	132	93	0	1671	27	18	25	28	1.98
9109175--9109389	42	5.1	42	71	9	186	31	22	21	24	1.98
9109257--9109445	87	2.2	88	92	0	308	34	21	20	23	1.96
9109309--9109445	43	3.1	44	66	7	116	34	21	20	24	1.97
9110191--9110255	6	10.5	6	80	5	67	18	4	1	75	1.05
9111055--9111114	30	2.1	28	84	6	75	36	10	8	45	1.68
9111097--9111174	35	2.2	36	84	6	97	38	7	2	51	1.44
9116577--9116712	66	2.1	66	98	0	263	25	11	20	42	1.86
9117176--9117209	12	2.8	12	86	0	50	73	14	0	11	1.10
9135098--9135204	51	2.1	51	85	3	144	23	16	29	29	1.96
9137374--9137415	20	2.1	20	86	8	59	71	0	2	26	0.98
9141214--9141248	18	1.9	18	94	0	61	45	11	14	28	1.79
9141893--9141942	24	2.1	24	100	0	100	18	24	16	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9150746--9150817	30	2.4	30	83	2	92	23	36	25	15	1.94
9151871--9151918	18	2.6	19	84	12	57	81	6	10	2	0.95
9151875--9151918	19	2.3	19	84	11	54	81	6	9	2	0.94
9153906--9153942	6	6.2	6	90	0	56	0	10	35	54	1.36
9153906--9153942	12	3.1	12	92	0	65	0	10	35	54	1.36
9157531--9157557	12	2.2	12	100	0	54	7	22	40	29	1.81
9163098--9163144	24	1.9	24	86	4	67	34	0	36	29	1.58
9163796--9164640	27	31.4	27	82	2	892	42	20	17	19	1.89
9167695--9167836	70	2.0	70	88	0	212	46	11	10	31	1.74
9168025--9168123	17	5.8	17	82	4	103	16	15	32	36	1.89

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