genome.fa.s17.2.7.7.80.10.50.1000.127.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  127  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)
39641405--39641476	35	2.1	35	86	5	101	44	9	16	29	1.80
39644601--39644642	6	7.2	6	83	5	50	64	0	4	30	1.14
39644601--39644642	17	2.4	17	88	4	57	64	0	4	30	1.14
39644610--39644643	11	3.0	11	87	8	50	58	0	5	35	1.22
39644660--39644698	6	6.5	6	93	0	51	76	7	0	15	0.99
39644660--39644698	12	3.2	12	88	0	60	76	7	0	15	0.99
39651270--39651330	28	2.2	28	82	5	70	50	13	0	36	1.41
39651374--39651415	19	2.2	19	86	0	57	40	14	7	38	1.73
39651830--39651867	18	2.2	17	95	4	67	42	5	0	52	1.24
39653849--39653873	6	4.2	6	100	0	50	48	0	36	16	1.46
39654494--39654553	17	3.5	17	75	8	59	25	20	26	28	1.99
39660335--39660374	19	2.1	19	86	9	55	57	5	5	32	1.42
39660792--39660867	17	4.6	17	73	15	70	40	2	1	55	1.22
39663628--39663914	110	2.6	110	87	3	380	32	23	15	28	1.95
39663958--39664011	23	2.3	24	90	3	83	44	29	14	11	1.80
39664674--39664711	16	2.3	17	82	17	53	28	18	2	50	1.61
39667092--39667150	22	2.6	22	91	2	91	23	23	30	22	1.99
39667869--39667916	25	1.9	25	86	0	69	29	10	25	35	1.89
39668620--39668658	18	2.2	18	95	0	69	10	12	10	66	1.44
39673246--39673293	22	2.2	22	96	0	87	50	25	4	20	1.66
39674200--39674231	14	2.1	16	88	11	50	43	0	0	56	0.99
39675145--39675180	9	3.9	9	85	7	54	58	0	2	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39675318--39675360	17	2.6	16	82	13	52	76	0	4	18	0.95
39691280--39691811	32	16.6	32	82	3	660	43	15	8	31	1.78
39691280--39691818	96	5.6	96	90	2	841	43	15	8	31	1.78
39697900--39697998	49	2.0	49	100	0	198	33	26	2	38	1.68
39699032--39699953	32	28.8	32	84	1	1085	42	16	9	31	1.80
39709322--39709369	23	2.0	25	88	8	73	60	0	0	39	0.97
39709334--39709368	17	2.0	18	94	5	63	65	0	0	34	0.93
39709439--39709477	15	2.4	17	83	12	55	43	0	2	53	1.14
39709655--39709690	17	2.1	18	89	5	56	27	5	2	63	1.30
39709702--39709739	18	2.2	18	85	4	51	50	2	0	47	1.15
39710295--39710326	3	11.0	3	93	6	57	34	0	0	65	0.93
39716595--39716621	13	2.1	13	100	0	54	22	14	18	44	1.86
39716767--39716870	50	2.1	51	98	1	201	18	36	5	39	1.75
39720128--39720186	26	2.3	25	85	8	82	40	0	1	57	1.09
39720141--39720196	15	4.0	15	73	17	57	44	0	0	55	0.99
39719971--39720209	120	2.0	120	97	0	451	43	1	4	51	1.31
39720116--39720247	18	7.8	17	69	19	80	40	1	1	56	1.18
39722071--39722132	24	2.6	24	74	2	72	24	12	20	41	1.87
39726155--39726193	20	2.0	20	90	5	62	64	2	0	33	1.08
39726777--39726829	23	2.5	21	81	9	63	35	3	3	56	1.35
39737967--39738075	25	4.4	25	75	0	83	31	22	25	21	1.98
39737979--39738076	25	3.9	25	76	0	97	34	21	23	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39740787--39740811	10	2.5	10	100	0	50	36	0	0	64	0.94
39741059--39741252	23	8.3	24	71	16	83	41	18	12	27	1.86
39741086--39741337	70	3.6	70	87	1	317	42	18	14	24	1.87
39741096--39741337	47	5.2	46	73	8	141	42	17	14	25	1.88
39741096--39741337	23	10.4	23	75	9	177	42	17	14	25	1.88
39742339--39742452	43	2.6	42	78	10	115	28	28	19	24	1.98
39747394--39747455	26	2.4	26	83	5	72	38	35	11	14	1.82
39755542--39755581	20	2.0	21	85	14	57	35	0	17	47	1.48
39762511--39762562	24	2.2	24	85	0	68	32	3	7	55	1.46
39763617--39763653	18	2.1	18	100	0	74	48	10	10	29	1.72
39769411--39769870	245	1.9	245	88	1	699	32	12	11	43	1.80
39791725--39791775	13	3.8	13	82	14	68	56	0	0	43	0.99
39791730--39791773	14	3.1	14	87	6	63	61	0	0	38	0.96
39791735--39791797	27	2.4	27	84	12	78	58	0	1	39	1.07
39795252--39795285	3	11.3	3	87	0	50	32	5	0	61	1.20
39795734--39796140	108	3.7	108	92	3	656	30	16	19	34	1.94
39795734--39796140	218	1.9	217	90	3	658	30	16	19	34	1.94
39796637--39796689	26	2.1	27	86	10	76	18	3	11	66	1.38
39796637--39796684	25	2.0	24	84	12	62	18	2	12	66	1.33
39799877--39799916	21	1.9	21	85	10	55	77	0	10	12	0.99
39802111--39802149	18	2.2	17	86	13	53	33	0	20	46	1.51
39802375--39802472	23	4.3	23	90	2	162	20	21	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39802377--39802465	45	2.0	45	95	0	160	19	22	26	31	1.97
39819265--39819301	18	2.1	18	94	0	65	24	27	8	40	1.83
39819555--39819630	21	3.6	21	91	5	118	30	43	15	10	1.81
39819736--39819860	62	2.1	59	85	7	162	39	3	8	48	1.50
39822841--39823213	125	3.0	124	82	6	470	27	16	17	37	1.92
39823290--39823403	34	3.4	33	72	13	115	48	13	0	37	1.48
39823285--39823412	34	3.8	32	73	19	111	48	14	0	36	1.49
39827329--39827444	56	2.1	56	96	0	214	33	17	13	35	1.89
39827946--39828015	11	6.4	11	78	4	70	70	4	1	24	1.14
39827946--39828015	22	3.1	22	89	2	104	70	4	1	24	1.14
39827987--39828031	20	2.3	20	80	3	56	71	6	0	22	1.09
39835225--39835351	10	13.0	10	68	19	72	31	3	0	63	1.18
39835234--39835361	9	13.7	9	69	14	64	32	3	0	64	1.15
39835206--39835388	86	2.2	83	81	10	210	32	3	1	63	1.18
39835376--39835411	17	2.1	18	89	5	56	19	2	8	69	1.27
39839328--39839365	18	2.1	18	90	5	58	42	5	0	52	1.24
39845765--39845862	50	1.9	50	87	2	142	27	22	18	31	1.97
39846525--39846575	23	2.2	24	85	3	68	76	1	15	5	1.07
39849223--39849360	50	2.7	51	85	3	172	25	18	26	29	1.98
39851732--39851810	26	3.0	26	78	5	88	46	0	1	51	1.08
39852397--39852444	24	2.0	24	83	0	60	18	16	16	47	1.82
39852672--39852733	23	2.7	23	79	2	70	32	16	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39860989--39861062	20	3.7	20	75	13	64	67	2	0	29	1.04
39862544--39862998	44	10.3	44	67	16	172	25	26	18	29	1.98
39862485--39863031	132	4.1	132	94	0	887	25	25	19	29	1.98
39868022--39868091	16	4.4	16	96	0	104	31	0	35	32	1.58
39868070--39868179	45	2.6	44	75	12	113	33	5	27	33	1.80
39868073--39868179	44	2.6	40	71	16	108	34	5	27	32	1.80
39868325--39868359	18	2.0	18	88	5	54	54	0	0	45	0.99
39868343--39868806	38	11.8	37	65	20	153	51	4	1	42	1.28
39868560--39868713	18	8.9	18	66	18	76	54	2	0	42	1.19
39868303--39868829	236	2.2	238	91	3	853	51	3	0	43	1.26
39868303--39868829	120	4.4	120	93	2	866	51	3	0	43	1.26
39888659--39888696	13	3.1	12	88	11	51	73	5	2	18	1.14
39889064--39889106	20	2.1	20	86	4	59	62	4	0	32	1.15
39893003--39893063	30	2.0	30	83	0	77	40	6	37	14	1.72
39897739--39897769	14	2.1	15	94	5	55	38	0	0	61	0.96
39898160--39898248	44	2.1	44	84	12	116	59	8	1	30	1.35
39899229--39899268	18	2.3	18	87	12	57	52	0	2	45	1.14
39899268--39899310	21	2.0	22	90	4	70	65	0	0	34	0.93
39901342--39901444	40	2.6	41	81	7	122	38	20	20	20	1.93
39901525--39901751	41	5.5	41	77	7	201	23	19	25	30	1.98
39901520--39901831	41	7.7	40	70	13	138	24	17	25	32	1.97
39903360--39903687	48	6.7	49	74	9	249	29	14	25	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39903360--39903687	99	3.3	99	84	5	380	29	14	25	29	1.95
39925237--39925274	13	3.1	12	88	11	51	73	5	2	18	1.14
39929600--39929660	30	2.0	30	83	0	77	40	6	37	14	1.72
39934494--39934526	15	2.1	16	94	5	59	36	0	0	63	0.95
39936059--39936102	22	2.0	22	86	8	63	65	0	0	34	0.93
39938129--39938240	39	2.8	40	84	2	145	39	19	20	20	1.93
39938322--39938549	41	5.5	41	78	6	210	23	19	25	31	1.98
39940147--39940481	50	6.6	50	77	5	298	28	14	26	29	1.96
39940147--39940481	101	3.3	100	86	2	422	28	14	26	29	1.96
39940248--39940522	151	1.8	151	80	3	338	30	14	26	29	1.95

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