genome.fa.s17.2.7.7.80.10.50.1000.178.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  178  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)
54134607--54134707	50	2.0	50	100	0	202	23	17	17	40	1.91
54138450--54138513	3	21.3	3	96	0	119	1	0	31	67	1.00
54141450--54141520	33	2.1	35	86	5	101	26	7	18	47	1.74
54148080--54148145	33	2.0	33	100	0	132	36	6	21	36	1.78
54148276--54148457	91	2.0	91	98	0	355	32	17	18	31	1.94
54153104--54153141	18	2.2	17	90	4	58	71	2	0	26	1.00
54153095--54153177	29	2.9	28	82	7	96	67	4	4	22	1.29
54165115--54165154	20	2.0	20	85	9	55	55	25	17	2	1.55
54166055--54166106	3	17.7	3	76	11	54	30	5	1	61	1.30
54168610--54168653	19	2.3	20	84	7	56	27	22	11	38	1.88
54173021--54173160	45	3.2	45	64	19	112	32	21	22	23	1.98
54172940--54173520	88	6.6	88	93	1	997	29	22	22	25	1.99
54172940--54173520	263	2.2	264	92	1	997	29	22	22	25	1.99
54173788--54173893	44	2.4	44	78	7	126	29	24	24	21	1.99
54174428--54174467	20	2.0	20	85	9	55	55	25	17	2	1.55
54175373--54175428	3	18.7	3	81	7	69	30	5	1	62	1.28
54180188--54180245	24	2.5	23	82	2	71	25	15	17	41	1.89
54199681--54199987	43	8.7	33	66	27	127	30	27	20	21	1.98
54199795--54199993	70	2.8	70	90	5	301	30	28	19	21	1.98
54205563--54205639	14	5.0	15	71	20	52	42	14	9	33	1.77
54205579--54205618	20	2.0	20	90	0	62	50	12	10	27	1.72
54205567--54205633	34	1.9	35	90	3	109	46	13	8	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54209503--54209527	9	2.8	9	100	0	50	44	0	0	56	0.99
54220549--54220597	22	2.2	22	85	10	64	6	14	4	75	1.14
54220635--54220670	17	2.0	17	89	10	54	19	2	11	66	1.35
54224898--54224931	17	2.0	17	94	0	59	44	50	0	5	1.26
54229537--54229570	17	2.0	17	94	0	59	44	50	0	5	1.26
54235708--54235733	4	6.5	4	100	0	52	23	0	0	76	0.78
54235819--54235863	11	4.0	11	85	2	54	13	4	0	82	0.82
54235813--54235852	17	2.2	19	86	8	57	12	2	2	82	0.87
54237000--54237159	41	3.9	41	86	0	221	31	27	22	18	1.97
54237234--54237328	40	2.4	40	83	0	118	20	17	22	40	1.92
54238838--54238871	17	2.0	17	94	0	59	44	50	0	5	1.26
54243477--54243510	17	2.0	17	94	0	59	44	50	0	5	1.26
54246702--54246749	19	2.7	19	78	18	59	20	14	16	47	1.82
54252055--54252095	21	2.0	21	90	0	64	29	21	29	19	1.98
54254316--54254364	18	2.8	17	87	6	71	51	0	0	48	1.00
54262916--54262949	17	2.0	17	94	0	59	44	50	0	5	1.26
54267554--54267587	17	2.0	17	94	0	59	44	50	0	5	1.26
54271768--54272007	126	1.9	126	96	0	444	36	13	17	32	1.89
54274029--54274376	174	2.0	175	84	4	461	23	11	20	44	1.84
54280708--54281055	174	2.0	175	84	4	461	23	11	20	44	1.84
54287402--54287749	174	2.0	175	84	4	461	23	11	20	44	1.84
54294095--54294442	174	2.0	175	84	4	461	23	11	20	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54297823--54297874	16	3.2	16	94	0	86	28	0	36	34	1.58
54297855--54297949	45	2.1	44	88	1	136	34	5	27	32	1.79
54298087--54298141	25	2.2	25	84	9	69	52	1	0	45	1.11
54298272--54298432	47	3.6	46	69	18	140	48	3	3	45	1.34
54302450--54302548	32	3.1	32	85	4	128	38	9	13	39	1.76
54321052--54321150	32	3.1	32	85	4	128	38	9	13	39	1.76
54326377--54326532	42	3.7	41	75	17	158	24	18	26	30	1.98
54333702--54333857	42	3.7	41	75	17	158	24	18	26	30	1.98
54351313--54351352	19	2.2	18	90	4	62	37	0	5	57	1.21
54351312--54351361	19	2.6	19	75	12	57	40	0	4	56	1.18
54351428--54351472	21	2.1	21	83	0	54	60	2	0	37	1.09
54354819--54354877	32	1.9	31	86	6	84	45	15	6	32	1.72
54357878--54357924	20	2.2	22	85	7	62	46	0	0	53	1.00
54360067--54360106	4	10.0	4	100	0	80	0	25	0	75	0.81
54364038--54364068	16	1.9	16	93	0	53	58	16	3	22	1.52
54365651--54365688	16	2.4	16	86	8	51	55	2	0	42	1.14
54365615--54365677	32	2.0	32	81	12	76	39	3	4	52	1.38
54368257--54368345	29	3.0	29	81	8	81	51	12	2	33	1.52
54368266--54368345	29	2.7	29	82	5	88	51	12	2	33	1.53
54369175--54369246	30	2.3	31	81	11	85	38	11	9	40	1.74
54369436--54369498	21	2.7	24	80	16	87	33	9	9	47	1.68
54369440--54369490	21	2.4	21	100	0	102	31	9	11	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54373842--54373880	17	2.4	16	84	12	53	38	10	2	48	1.51
54393227--54393274	13	3.6	13	75	13	53	2	12	4	81	0.93
54394507--54394561	24	2.2	24	84	12	67	27	5	3	63	1.33
54400093--54400528	51	8.6	52	75	9	337	31	26	15	26	1.96
54400138--54400524	151	2.5	153	81	5	419	31	26	15	26	1.96
54400195--54400524	102	3.3	102	86	2	407	31	26	14	27	1.95
54406610--54406663	27	2.0	27	100	0	108	14	29	7	48	1.71
54408286--54408374	33	2.7	33	85	0	133	38	23	4	33	1.75
54410196--54410231	16	2.2	16	90	9	56	77	0	2	19	0.88
54414001--54414053	20	2.7	19	75	11	54	45	0	1	52	1.11
54419710--54419774	33	2.0	33	87	0	94	30	4	21	43	1.73
54419907--54419942	16	2.2	16	90	9	56	19	2	0	77	0.88
54425196--54425286	42	2.3	40	82	14	109	39	2	0	58	1.10
54425255--54425281	11	2.5	11	100	0	54	48	0	0	51	1.00
54425266--54425364	33	2.8	37	82	14	104	36	1	1	61	1.10
54427040--54427136	43	2.3	40	81	13	122	39	6	2	52	1.38
54429081--54429130	26	1.9	26	100	0	100	36	4	32	28	1.76
54429962--54430050	42	2.1	43	80	2	99	53	7	5	32	1.53
54430233--54430284	21	2.5	21	87	0	77	57	1	3	36	1.28
54430233--54430284	3	17.3	3	83	0	59	57	1	3	36	1.28
54435466--54435530	33	2.0	33	84	0	85	32	4	23	40	1.75
54442608--54442649	20	2.1	20	86	0	57	47	0	7	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54455499--54455539	21	2.0	21	90	0	64	19	29	21	29	1.98
54462472--54462502	6	5.2	6	100	0	62	16	0	35	48	1.46
54462789--54462826	16	2.4	16	86	0	58	39	2	31	26	1.70
54462808--54462901	44	2.1	44	88	4	134	31	4	25	38	1.75
54463060--54463193	18	8.0	17	68	19	77	56	2	0	40	1.17
54474500--54474560	31	2.0	31	90	6	97	60	0	1	37	1.07
54474500--54474551	10	4.9	11	79	11	56	57	0	1	40	1.10
54474607--54474667	11	5.6	11	74	16	56	60	0	3	36	1.13
54474614--54474652	19	2.1	19	85	0	51	61	0	0	38	0.96
54482105--54482181	39	2.2	33	74	25	93	35	2	23	38	1.69
54493378--54493420	22	2.0	22	90	0	68	34	2	16	46	1.60
54497104--54497146	22	2.0	22	90	0	68	34	2	16	46	1.60
54500259--54500324	33	2.0	33	84	0	87	39	22	4	33	1.75
54501496--54501520	13	1.9	13	100	0	50	24	24	8	44	1.80
54506783--54506825	23	2.0	21	90	9	68	41	0	11	46	1.40
54509368--54509419	24	2.2	24	82	6	61	51	1	15	30	1.54
54517157--54517199	15	2.8	16	92	3	70	74	0	2	23	0.93
54517157--54517199	8	5.5	8	94	5	70	74	0	2	23	0.93
54520578--54520648	33	2.2	33	92	5	117	38	2	0	59	1.12
54520578--54520632	11	5.0	11	78	8	67	38	1	0	60	1.08
54523242--54523366	31	4.1	31	77	6	119	41	14	19	24	1.88
54523393--54523497	29	3.6	29	76	10	104	42	20	17	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54523372--54523526	60	2.6	60	86	2	195	40	20	19	20	1.92
54523564--54523650	31	2.9	29	70	11	77	45	14	16	22	1.84
54523638--54523703	31	2.1	32	82	2	80	53	15	10	21	1.72
54525503--54525571	23	3.0	23	100	0	138	17	30	13	39	1.87
54529500--54529546	20	2.3	20	85	0	67	65	2	0	31	1.04
54529518--54529582	27	2.3	27	77	15	69	64	3	3	29	1.23
54529510--54529585	28	2.6	28	79	10	82	64	2	2	30	1.21
54529740--54529775	10	3.6	10	92	0	54	2	13	0	83	0.76
54532040--54532064	13	1.9	13	100	0	50	36	0	0	64	0.94
54532041--54532101	11	5.4	11	78	9	52	34	1	0	63	1.04

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