genome.fa.s20.2.7.7.80.10.50.1000.188.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  188  of  199  ( 23844 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)
54554570--54554660	45	2.0	45	85	2	121	37	28	6	27	1.82
54554641--54554709	16	4.2	16	96	3	129	37	37	0	24	1.56
54554641--54554709	33	2.1	32	97	2	129	37	37	0	24	1.56
54555497--54555760	128	2.1	129	98	0	512	36	11	16	35	1.84
54555750--54555781	3	10.7	3	100	0	64	68	0	31	0	0.90
54556582--54556635	24	2.2	24	86	0	72	35	3	5	55	1.41
54561818--54561856	20	2.0	20	85	5	53	43	5	10	41	1.61
54561803--54561856	18	2.8	19	83	5	56	40	3	9	46	1.54
54566150--54566261	46	2.4	47	83	3	154	9	18	25	45	1.80
54566150--54566278	22	5.6	22	72	9	98	11	18	25	44	1.84
54569866--54569933	29	2.4	30	82	7	79	60	2	4	32	1.32
54576457--54576498	20	2.1	20	100	0	84	52	9	14	23	1.71
54578684--54579082	157	2.6	148	86	5	541	43	9	5	41	1.60
54582097--54582145	26	1.9	25	91	4	80	34	12	10	42	1.76
54588381--54588429	21	2.3	21	86	6	64	38	42	0	18	1.50
54610970--54611674	349	2.0	349	98	0	1358	26	25	17	30	1.97
54619301--54619349	20	2.7	18	77	22	57	51	4	2	42	1.32
54621909--54621943	19	1.9	17	88	11	52	60	11	8	20	1.57
54629598--54629630	11	2.9	12	86	13	52	33	0	0	66	0.92
54629754--54629816	30	2.1	30	87	0	90	60	11	1	26	1.40
54638138--54638244	53	2.0	53	94	0	187	44	14	15	24	1.85
54638930--54638954	12	2.1	12	100	0	50	16	24	0	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54648622--54648646	3	8.3	3	100	0	50	36	32	0	32	1.58
54655670--54655712	22	2.0	22	81	9	52	55	0	6	37	1.27
54655954--54656013	29	2.1	30	84	9	81	36	1	8	53	1.41
54656599--54656657	28	2.1	27	81	9	66	55	3	10	30	1.49
54659573--54659785	37	5.8	37	97	0	372	39	14	20	25	1.90
54659748--54659871	46	2.8	46	91	3	200	33	16	22	27	1.96
54667290--54667497	37	5.8	37	92	5	327	38	13	20	26	1.90
54667460--54667583	46	2.8	46	90	3	191	33	17	22	26	1.96
54688865--54689045	37	4.8	37	93	2	272	38	13	20	27	1.91
54689007--54689130	46	2.8	46	91	3	200	33	16	22	27	1.96
54705704--54705760	21	2.7	21	75	0	60	31	36	3	28	1.74
54706273--54706306	16	2.1	16	100	0	68	41	11	0	47	1.40
54706495--54706557	33	1.9	33	90	3	101	46	3	22	28	1.67
54706506--54706638	32	4.1	32	73	13	101	36	4	24	35	1.76
54713063--54713102	18	2.4	16	84	12	53	65	7	10	17	1.46
54713065--54713102	17	2.2	17	90	4	58	65	5	10	18	1.41
54717149--54717219	30	2.2	30	83	14	81	39	8	9	42	1.69
54734758--54734861	38	2.8	37	78	13	108	38	0	1	59	1.08
54734777--54734839	10	6.4	10	71	21	53	31	0	1	66	1.01
54737869--54737898	12	2.5	12	94	0	51	46	0	6	46	1.29
54737980--54738026	16	2.7	17	80	9	51	63	4	0	31	1.13
54737983--54738031	17	2.7	19	78	15	59	61	8	0	30	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54738245--54738328	3	28.3	3	72	13	59	66	1	3	28	1.15
54738245--54738328	11	7.4	11	70	21	57	66	1	3	28	1.15
54738245--54738324	24	3.2	26	72	21	73	66	1	3	28	1.17
54738252--54738330	15	5.1	15	72	21	65	68	1	3	26	1.14
54738655--54738719	20	3.0	20	82	13	60	58	29	1	10	1.41
54738812--54738910	38	2.6	38	95	1	173	21	10	49	19	1.77
54739224--54739375	40	3.8	40	81	3	196	26	20	21	30	1.98
54739208--54739376	82	2.0	83	89	1	259	26	18	21	33	1.96
54739563--54739761	45	4.4	45	66	13	111	28	24	19	27	1.99
54739536--54740109	134	4.3	133	95	1	977	28	23	21	26	1.99
54739538--54740109	267	2.1	269	93	0	986	28	23	21	26	1.99
54740081--54740598	44	11.8	44	73	9	398	29	25	17	27	1.97
54740047--54740626	132	4.4	132	92	0	910	29	25	17	27	1.97
54752765--54752794	12	2.5	12	94	0	51	46	0	6	46	1.29
54752876--54752922	16	2.7	17	80	9	51	63	4	0	31	1.13
54752879--54752927	17	2.7	19	78	15	59	61	8	0	30	1.25
54753141--54753223	3	28.3	3	73	20	54	66	1	3	28	1.16
54753553--54753625	23	3.2	23	76	16	71	60	28	1	9	1.37
54753551--54753616	21	3.0	21	82	8	62	57	30	1	10	1.42
54753708--54753807	38	2.6	38	96	0	182	21	10	49	20	1.77
54754984--54755028	21	2.2	20	84	11	56	40	11	13	35	1.80
54756609--54756641	14	2.2	15	89	10	50	45	15	12	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54774009--54774055	16	2.7	17	80	9	51	63	4	0	31	1.13
54774012--54774060	17	2.7	19	78	15	59	61	8	0	30	1.25
54774274--54774355	3	27.3	3	72	18	57	65	1	3	29	1.17
54774274--54774355	11	7.4	11	74	17	71	65	1	3	29	1.17
54774290--54774356	27	2.5	28	76	13	70	67	1	4	26	1.19
54774274--54774352	24	3.4	24	70	21	69	65	1	3	29	1.17
54774684--54774756	23	3.2	23	76	16	71	60	28	1	9	1.37
54774682--54774747	21	3.0	21	82	8	62	57	30	1	10	1.42
54774840--54774939	38	2.6	38	96	0	182	21	10	49	20	1.77
54781615--54781644	7	4.3	7	95	0	51	16	43	26	13	1.85
54785454--54785511	16	3.8	16	67	17	50	32	3	0	63	1.11
54785402--54785490	24	3.4	25	67	23	58	32	3	0	64	1.10
54785466--54785529	31	2.1	31	88	8	96	39	3	0	57	1.14
54788099--54788164	31	2.1	31	86	8	89	68	0	0	31	0.90
54788098--54788222	10	12.4	10	67	13	51	67	4	0	28	1.11
54788151--54788227	29	2.7	29	95	0	136	63	9	0	27	1.24
54788112--54788243	29	4.5	28	81	7	106	63	5	0	31	1.16
54788112--54788259	29	5.1	29	80	8	92	62	5	0	31	1.17
54788325--54788409	20	4.3	18	69	19	55	61	7	2	29	1.35
54788903--54788987	10	8.3	10	73	13	57	23	2	3	70	1.14
54788903--54788988	39	2.1	41	82	4	104	24	2	3	69	1.15
54788903--54788988	11	8.6	10	74	13	70	24	2	3	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54788903--54788987	21	4.1	21	72	15	70	23	2	3	70	1.14
54789045--54789172	19	6.9	18	73	16	75	31	1	4	62	1.25
54789045--54789172	10	13.8	9	71	14	75	31	1	4	62	1.25
54789050--54789110	28	2.2	27	85	8	88	32	0	3	63	1.10
54792066--54792123	30	1.9	30	82	6	73	50	6	3	39	1.46
54794342--54794399	27	2.1	27	83	3	71	31	10	24	34	1.89
54803493--54803550	27	2.1	28	87	3	82	31	8	25	34	1.86
54804487--54804524	18	2.1	19	85	5	51	28	2	5	63	1.30
54806413--54806493	31	2.6	31	90	0	126	53	7	3	35	1.47
54806791--54806823	8	3.9	9	88	11	52	39	0	0	60	0.97
54809547--54809573	3	9.0	3	100	0	54	66	0	33	0	0.92
54815921--54816000	12	6.2	12	70	18	54	75	3	13	7	1.16
54817083--54817120	13	2.8	13	82	17	51	73	0	18	7	1.06
54817083--54817144	27	2.3	27	86	5	81	70	1	17	9	1.22
54817001--54817120	12	10.0	12	69	19	63	70	3	17	8	1.25
54817015--54817128	6	18.5	6	70	10	70	72	4	16	6	1.21
54817126--54817157	12	2.7	12	95	0	55	59	0	21	18	1.38
54821517--54821572	5	11.4	5	75	11	53	35	3	19	41	1.69
54822628--54822661	17	2.0	17	88	0	50	26	0	5	67	1.13
54832019--54832440	106	4.0	106	93	1	711	32	18	18	30	1.96
54840751--54840809	25	2.4	24	80	8	64	61	0	1	37	1.07
54840824--54840857	18	1.9	17	88	5	50	70	5	2	20	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54840836--54840893	16	3.7	16	68	19	50	67	3	0	29	1.07
54841215--54841295	32	2.5	33	80	6	94	38	2	1	58	1.20
54841285--54841331	19	2.6	19	86	6	62	25	4	2	68	1.19
54842117--54842223	52	2.1	52	92	0	178	18	28	10	42	1.83
54843264--54843311	17	2.9	16	79	14	53	77	4	2	16	1.03
54843268--54843311	16	2.6	16	82	7	52	79	4	2	13	0.98
54843408--54843440	11	2.9	12	91	8	52	0	48	0	51	1.00
54843905--54843967	3	20.3	3	74	6	54	30	1	6	61	1.30
54843912--54843978	23	3.0	23	79	12	61	31	2	10	55	1.49
54844067--54844102	3	12.0	3	93	0	63	33	2	0	63	1.08

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199