genome.fa.s20.2.7.7.80.10.50.1000.19.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: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  19  of  189  ( 22580 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)
6058983--6059225	50	4.8	50	89	1	362	25	23	30	20	1.98
6068928--6069206	41	6.8	41	89	6	381	27	20	24	28	1.99
6076572--6076851	41	6.8	41	90	5	381	27	20	24	28	1.99
6082327--6082365	19	1.9	20	85	15	53	56	5	33	5	1.43
6091889--6091934	21	2.2	21	85	14	60	69	0	2	28	1.00
6092659--6092697	19	2.1	18	90	4	60	28	0	12	58	1.34
6092663--6092703	19	2.3	18	87	8	57	26	0	9	63	1.25
6093615--6093646	16	2.0	16	100	0	64	31	43	12	12	1.80
6094192--6094331	72	1.9	73	81	4	167	34	22	25	18	1.96
6094310--6094378	26	2.7	26	79	4	86	37	20	23	18	1.94
6102086--6102110	7	3.6	7	100	0	50	36	0	0	64	0.94
6104938--6104997	30	2.0	30	90	0	93	28	5	11	55	1.57
6108906--6108960	29	2.0	27	82	13	67	60	10	14	14	1.60
6109113--6109145	15	2.2	15	100	0	66	36	6	33	24	1.80
6110051--6110116	34	1.9	35	84	9	91	37	10	1	50	1.47
6110128--6110196	34	2.0	34	83	5	86	33	7	1	57	1.35
6110151--6110194	16	2.6	18	75	14	56	36	6	0	56	1.26
6116613--6116665	27	2.0	27	100	0	106	33	11	18	35	1.87
6130437--6130462	1	26.0	1	100	0	52	100	0	0	0	0.00
6131633--6131879	46	5.7	45	69	14	144	32	20	19	27	1.97
6131676--6132000	44	7.6	43	72	11	195	31	20	21	27	1.98
6131633--6131961	44	7.6	44	72	13	181	31	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6131803--6132001	86	2.3	88	81	6	217	30	21	21	27	1.98
6139886--6139984	23	4.3	24	87	6	134	29	27	20	23	1.99
6140210--6140248	18	2.2	17	86	13	53	46	20	0	33	1.51
6140318--6140408	45	2.0	45	100	0	182	17	32	4	45	1.69
6141399--6141465	31	2.2	31	83	5	82	47	14	11	25	1.79
6161447--6161574	61	2.1	61	80	8	145	39	8	15	35	1.78
6170628--6170668	21	2.0	21	90	0	64	29	21	29	19	1.98
6180799--6180837	18	2.2	18	86	9	53	48	2	0	48	1.15
6180968--6181024	23	2.5	23	82	5	71	45	3	1	49	1.29
6183286--6183344	23	2.4	25	73	15	61	72	8	1	16	1.17
6183297--6183342	25	2.0	24	83	12	60	73	6	2	17	1.14
6186557--6186612	28	2.0	28	100	0	112	21	25	10	42	1.85
6194854--6194936	43	2.0	41	85	4	112	48	7	7	37	1.59
6198110--6198137	2	14.0	2	100	0	56	50	0	0	50	1.00
6200781--6200825	23	1.9	24	86	4	65	55	6	2	35	1.38
6203734--6203769	7	4.9	7	90	10	54	55	0	0	44	0.99
6205150--6205195	16	2.6	18	86	10	60	47	8	4	39	1.54
6205155--6205195	19	2.2	19	86	8	57	46	9	2	41	1.50
6205338--6205368	3	10.3	3	100	0	62	32	0	0	67	0.91
6215915--6215964	25	2.1	25	85	7	68	32	8	0	60	1.26
6217852--6217893	21	2.0	21	90	0	66	38	33	19	9	1.84
6223778--6223811	8	4.0	8	88	11	50	82	0	2	14	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6223778--6223813	17	2.1	18	89	5	56	80	0	2	16	0.83
6226218--6226316	31	3.2	30	76	8	110	36	3	6	54	1.41
6227455--6227502	23	2.1	23	84	7	62	29	2	2	66	1.14
6228399--6228452	26	2.1	26	92	0	90	38	12	16	31	1.87
6229423--6229468	18	2.6	18	77	19	51	13	15	0	71	1.14
6229435--6229466	6	5.5	6	96	3	57	15	12	0	71	1.14
6231438--6231521	31	2.8	31	78	3	91	32	10	13	44	1.78
6231795--6231820	4	6.5	4	100	0	52	76	0	0	23	0.78
6237719--6238437	198	3.6	198	83	3	901	36	15	15	32	1.89
6240227--6240265	7	5.4	7	84	3	51	23	0	0	76	0.78
6240234--6240272	18	2.2	18	85	0	51	30	0	0	69	0.89
6249334--6249363	15	2.0	15	93	0	51	43	6	0	50	1.28
6250573--6250616	19	2.3	19	88	0	61	72	6	6	13	1.25
6252246--6252314	26	2.7	26	68	18	63	17	23	21	37	1.94
6257529--6257847	159	2.0	160	85	5	441	18	11	18	51	1.75
6264470--6264798	165	2.0	164	88	0	487	27	13	24	34	1.93
6267569--6267601	15	2.1	16	88	5	50	3	21	0	75	0.93
6280587--6280617	7	4.4	7	100	0	62	61	12	0	25	1.32
6282736--6282932	96	2.1	96	99	0	385	36	21	16	25	1.94
6285903--6286053	76	2.0	76	100	0	302	34	13	16	35	1.88
6297457--6297501	16	2.8	16	75	3	54	40	2	0	57	1.11
6298187--6298235	22	2.3	22	82	3	64	48	0	6	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6299154--6299193	9	4.4	9	83	0	53	42	15	10	32	1.79
6299154--6299193	18	2.2	18	95	0	71	42	15	10	32	1.79
6299201--6299243	12	3.5	12	87	3	59	18	2	13	65	1.38
6299201--6299243	18	2.3	19	88	4	61	18	2	13	65	1.38
6299215--6299256	18	2.2	20	87	8	61	21	0	11	66	1.23
6305129--6305333	102	2.0	102	100	0	410	19	11	20	48	1.80
6310378--6310438	29	2.1	30	87	3	88	42	11	6	39	1.67
6313010--6313043	15	2.3	15	95	5	61	67	17	0	14	1.23
6316312--6316363	27	1.9	27	96	0	95	30	32	23	13	1.93
6316415--6316465	26	2.0	26	96	0	93	29	35	23	11	1.90
6316278--6316544	104	2.6	104	92	2	439	30	30	20	19	1.97
6316871--6316933	29	2.2	29	81	13	76	30	26	6	36	1.81
6316878--6316933	29	1.9	30	85	7	80	30	23	7	39	1.81
6327399--6327436	20	1.9	20	94	0	67	18	15	28	36	1.92
6333328--6333356	15	1.9	15	100	0	58	34	0	0	65	0.93
6335356--6335400	13	3.1	14	81	15	56	46	0	2	51	1.13
6335848--6335936	38	2.3	38	88	5	124	38	3	4	53	1.38
6342137--6342182	24	1.9	24	100	0	92	32	6	13	47	1.68
6342892--6342947	26	2.4	22	76	11	58	50	7	0	42	1.30
6353215--6353404	84	2.3	85	78	4	224	38	5	10	44	1.63
6361636--6361679	9	4.8	9	86	5	61	63	0	2	34	1.07
6366192--6366242	15	3.5	15	74	15	52	31	1	5	60	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6367131--6367497	46	7.6	46	86	8	432	29	22	14	34	1.93
6367174--6367491	52	6.3	52	86	7	426	28	22	13	34	1.93
6367131--6367497	98	3.8	98	85	8	505	29	22	14	34	1.93
6369860--6369909	26	1.9	26	84	8	66	26	2	12	60	1.43
6370706--6370757	26	2.0	25	85	3	68	48	3	17	30	1.65
6371026--6371090	29	2.2	31	83	5	80	10	13	1	73	1.16
6371950--6371987	20	1.9	20	84	10	51	65	0	23	10	1.23
6373461--6373515	25	2.3	23	82	14	67	45	1	1	50	1.22
6374300--6374348	18	2.7	17	81	12	62	32	0	4	63	1.13
6379587--6379627	20	2.0	20	100	0	82	29	14	19	36	1.92
6384065--6384104	20	2.0	20	90	0	62	27	10	12	50	1.72
6384050--6384116	34	1.9	35	87	3	100	32	8	11	46	1.72
6407897--6407992	44	2.2	44	90	0	147	48	4	8	38	1.52
6410746--6410788	16	2.6	18	78	17	56	62	0	2	34	1.08
6410746--6410787	17	2.6	16	82	14	50	61	0	2	35	1.09
6414463--6414516	28	1.9	28	85	7	74	44	0	11	44	1.39
6414462--6414522	28	2.2	28	79	5	70	49	1	9	39	1.46
6414512--6414589	30	2.5	32	77	4	79	58	5	3	32	1.38
6414669--6414702	17	1.9	18	88	5	52	58	0	2	38	1.13
6415068--6415096	6	5.0	6	91	8	51	48	0	17	34	1.47
6415959--6416139	92	2.0	92	100	0	362	38	18	9	33	1.84
6419069--6419118	13	3.8	13	86	0	73	36	22	6	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6419058--6419113	26	2.2	26	80	6	60	33	21	5	39	1.76
6420851--6420910	31	1.9	31	93	0	102	48	11	6	33	1.66
6425119--6425228	50	2.2	51	86	1	150	30	20	16	32	1.94
6426638--6426702	27	2.6	25	78	9	69	52	3	1	43	1.26
6432899--6432942	19	2.2	19	84	8	52	20	22	0	56	1.42
6437417--6437504	9	9.6	9	70	18	56	64	2	2	30	1.18
6437738--6437801	29	2.2	30	85	2	85	34	7	3	54	1.45
6437807--6437927	28	4.4	28	75	14	94	31	4	1	62	1.23
6437849--6437927	25	2.9	26	80	12	81	32	3	0	63	1.12
6437988--6438226	93	2.6	93	80	5	254	35	10	18	34	1.86

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