genome.fa.s17.2.7.7.80.10.50.1000.140.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  140  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)
43388931--43388986	18	3.2	16	76	14	58	12	3	8	75	1.17
43388918--43388986	34	2.0	36	83	11	90	14	4	11	69	1.33
43392120--43392182	31	2.1	29	82	5	72	39	12	3	44	1.59
43392775--43392801	11	2.5	11	100	0	54	44	0	33	22	1.53
43393317--43393367	8	6.0	8	78	17	50	25	1	0	72	0.95
43400186--43400246	29	2.1	30	84	3	79	27	6	16	49	1.70
43406201--43406236	11	3.2	11	96	4	63	19	36	0	44	1.51
43406200--43406252	22	2.4	22	82	17	65	20	33	0	45	1.52
43406237--43406270	17	1.9	17	88	5	50	32	26	0	41	1.56
43408122--43408161	18	2.2	18	90	0	62	20	30	5	45	1.72
43408733--43409707	21	45.2	21	83	7	1039	46	28	0	24	1.56
43408714--43408811	21	4.4	24	88	6	79	45	31	0	22	1.52
43408794--43408878	27	3.3	27	76	17	90	47	28	0	24	1.53
43408937--43408990	27	2.0	27	92	0	90	44	31	0	24	1.54
43409382--43409441	27	2.2	28	87	3	86	43	31	0	25	1.55
43409715--43409983	114	2.4	114	96	0	484	39	9	8	42	1.68
43412989--43413501	125	4.1	125	90	0	805	32	21	16	29	1.95
43412989--43413501	249	2.1	249	90	0	812	32	21	16	29	1.95
43413542--43413584	15	2.7	16	75	10	52	55	27	0	16	1.41
43414316--43414346	15	2.0	16	93	6	55	83	0	12	3	0.75
43417827--43417903	2	38.5	2	100	0	154	50	0	49	0	1.00
43425522--43425572	19	2.6	19	81	9	59	31	0	5	62	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43425530--43425573	10	4.5	10	81	13	56	29	0	6	63	1.20
43432823--43432884	26	2.4	26	91	0	97	38	12	12	35	1.82
43436480--43436513	18	1.9	18	94	5	61	32	0	14	52	1.42
43444495--43444628	67	2.0	67	100	0	268	29	23	14	31	1.95
43455010--43455046	18	2.0	19	89	5	58	45	2	5	45	1.40
43478217--43478394	27	6.6	27	84	3	205	29	28	15	26	1.96
43478238--43478393	82	1.9	81	88	3	233	29	28	15	26	1.96
43480275--43480377	35	3.0	35	80	8	104	31	28	22	18	1.97
43485490--43485515	12	2.2	12	100	0	52	23	7	15	53	1.67
43488228--43488294	33	2.1	31	89	8	100	28	5	13	52	1.64
43490791--43490821	14	2.2	14	94	0	53	38	9	6	45	1.63
43491233--43491299	24	2.8	25	75	11	68	25	11	19	43	1.85
43491337--43491397	27	2.2	28	85	8	81	27	32	8	31	1.86
43493590--43493624	18	1.9	18	94	0	61	42	5	40	11	1.65
43499630--43499678	24	2.0	25	84	4	64	53	6	18	22	1.66
43511143--43511173	10	3.1	10	95	0	53	45	0	9	45	1.36
43515474--43515537	29	2.3	27	78	10	67	51	7	0	40	1.31
43515827--43516288	244	1.9	245	86	8	657	41	8	16	33	1.80
43523237--43523267	16	1.9	16	93	0	53	41	22	12	22	1.88
43525472--43525752	90	3.1	90	98	0	537	45	9	5	40	1.59
43531815--43531882	34	2.0	34	83	8	86	22	4	4	69	1.25
43531834--43531889	28	2.0	28	86	10	78	21	3	1	73	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43531881--43531937	27	2.1	27	83	0	69	42	3	3	50	1.36
43532224--43532262	9	4.6	8	84	9	51	15	0	2	82	0.79
43532578--43532774	98	2.0	98	93	0	340	28	10	23	37	1.88
43544261--43544401	44	3.2	44	67	15	128	30	22	23	23	1.99
43544149--43544386	132	1.8	132	88	0	368	31	20	25	23	1.98
43544267--43544455	88	2.1	88	95	0	333	30	23	23	22	1.99
43544286--43544424	44	3.2	44	67	15	124	32	20	25	21	1.98
43544474--43544658	44	4.2	44	66	13	128	28	21	25	23	1.99
43544149--43544580	213	2.0	216	91	4	701	30	21	24	23	1.99
43544355--43545918	132	11.9	132	92	0	2440	30	20	25	23	1.98
43546178--43546222	17	2.6	17	79	6	56	35	33	20	11	1.88
43547326--43547394	34	2.0	34	81	10	79	21	4	4	69	1.24
43547326--43547399	30	2.3	33	82	15	86	20	4	4	71	1.19
43548090--43548286	98	2.0	98	90	0	313	30	10	23	36	1.88
43549606--43549656	22	2.3	22	100	0	102	27	33	0	39	1.57
43549702--43549765	29	2.1	32	88	8	98	34	0	0	65	0.93
43549717--43549759	22	1.9	23	90	4	70	34	0	0	65	0.93
43550845--43550869	7	3.6	7	100	0	50	28	0	12	60	1.32
43551521--43551555	18	1.9	18	88	0	52	25	34	8	31	1.86
43551814--43551869	24	2.3	24	87	0	85	44	30	21	3	1.69
43552106--43553056	28	33.4	28	88	3	1328	49	23	0	27	1.51
43552106--43553056	113	8.4	112	89	3	1289	49	23	0	27	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43552106--43553056	85	11.1	84	89	3	1362	49	23	0	27	1.51
43553054--43553110	26	2.2	26	96	0	105	26	8	7	57	1.54
43553206--43553230	10	2.5	10	100	0	50	44	8	0	48	1.32
43556336--43556682	127	2.8	126	95	2	619	32	21	15	30	1.94
43557611--43557635	10	2.5	10	100	0	50	8	0	0	92	0.40
43562115--43562151	13	2.8	13	91	0	56	43	40	0	16	1.48
43562299--43562351	9	5.8	9	74	12	54	22	9	26	41	1.84
43570145--43570202	27	2.1	27	87	6	80	15	6	1	75	1.09
43571611--43571637	9	3.0	9	100	0	54	22	0	0	77	0.76
43573031--43573464	23	18.5	23	72	10	272	40	18	14	26	1.89
43573045--43573417	70	5.3	70	90	2	570	40	19	13	26	1.88
43573051--43573417	141	2.6	141	92	3	598	40	19	13	26	1.88
43573047--43573474	47	9.1	46	70	13	257	41	18	13	26	1.88
43577673--43577724	21	2.6	21	85	8	65	76	1	0	21	0.87
43577697--43577724	6	4.7	6	100	0	56	85	0	0	14	0.59
43582132--43582164	14	2.3	15	89	5	50	30	12	0	57	1.35
43590667--43590700	17	2.1	16	88	5	50	70	0	14	14	1.17
43591906--43591949	17	2.5	18	77	3	54	4	6	9	79	1.04
43592177--43592214	12	3.0	13	84	7	51	63	0	0	36	0.95
43592178--43592218	13	3.2	13	86	6	57	65	0	0	34	0.93
43604181--43604223	21	2.0	22	86	4	61	41	11	2	44	1.53
43606208--43606302	37	2.6	37	80	4	97	53	1	0	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43606250--43606304	23	2.4	23	79	8	69	58	0	0	41	0.98
43606214--43606307	21	4.6	21	68	21	65	54	1	0	44	1.07
43613766--43613831	29	2.3	28	80	12	80	27	3	1	68	1.13
43613768--43613812	22	2.0	22	86	0	63	24	2	2	71	1.09
43616367--43616513	62	2.4	62	85	4	190	29	24	21	25	1.99
43616468--43616511	23	1.9	23	90	0	70	29	27	22	20	1.99
43616603--43616758	42	3.7	41	86	1	186	37	19	11	31	1.87
43618618--43618790	95	1.8	94	85	6	242	41	2	15	41	1.59
43618822--43619112	126	2.3	126	95	0	510	31	20	21	26	1.98
43622051--43622098	23	2.1	23	84	0	60	41	35	4	18	1.70
43623200--43623224	3	8.3	3	100	0	50	32	0	0	68	0.90
43624787--43624834	21	2.3	21	78	7	53	6	18	41	33	1.76
43625015--43625057	18	2.4	18	88	0	59	44	9	27	18	1.80
43625670--43625729	7	8.6	7	100	0	120	56	15	0	28	1.39
43625725--43625792	7	9.7	7	100	0	136	57	14	0	27	1.38
43625670--43625778	21	5.2	21	93	6	122	56	14	0	28	1.39
43626919--43626970	11	4.7	11	81	15	63	38	0	34	26	1.57
43627326--43627421	33	3.1	33	63	25	91	47	5	3	43	1.41
43638647--43638730	37	2.3	37	85	4	107	21	10	15	52	1.73
43639236--43639279	18	2.2	20	84	11	56	38	0	4	56	1.20
43640179--43640208	3	10.0	3	100	0	60	33	0	0	66	0.92
43641117--43641145	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43641924--43641978	5	11.2	5	98	1	103	40	0	0	60	0.97
43641998--43642027	15	2.1	14	93	6	51	46	6	0	46	1.29
43642631--43642770	69	2.0	69	87	8	205	25	14	25	35	1.93
43647984--43648025	16	2.5	17	77	18	52	30	0	0	69	0.89
43663451--43663502	18	2.9	18	77	11	61	25	28	25	21	1.99
43663439--43663514	36	2.1	36	87	4	109	23	30	23	22	1.99
43663655--43663707	24	2.2	24	82	0	61	32	7	9	50	1.62
43673511--43673698	95	1.9	95	84	10	247	36	17	7	38	1.79
43675966--43676168	103	2.0	103	96	0	370	31	14	14	40	1.85
43680868--43680901	16	2.1	16	100	0	68	5	38	11	44	1.65

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