genome.fa.s21.2.7.7.80.10.50.1000.173.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_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   200   201   202   203   204   205   206   207   208   
          209   210   211   

This is table  173  of  211  ( 25274 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)
53971226--53971259	16	2.1	17	88	5	52	14	58	0	26	1.36
53980293--53980443	42	3.6	41	78	10	144	35	25	14	23	1.93
53980289--53980443	85	1.8	84	87	4	231	34	25	15	23	1.94
53980301--53980483	41	4.4	41	79	8	145	33	24	14	27	1.94
53989204--53989270	31	2.2	31	97	0	125	23	16	13	46	1.82
53989219--53989283	31	2.2	29	83	8	78	30	15	16	36	1.90
53991340--53991381	22	2.0	21	85	4	57	64	2	4	28	1.26
54007690--54007809	41	2.9	41	86	0	141	27	19	25	28	1.98
54008158--54008246	44	2.0	45	95	4	162	34	5	15	43	1.70
54013907--54013941	18	2.0	18	88	5	54	17	5	17	60	1.55
54015197--54015316	41	2.9	41	86	0	141	27	19	25	28	1.98
54021523--54021553	15	2.1	15	100	0	62	6	19	12	61	1.53
54023553--54023606	27	2.0	27	92	0	90	46	12	9	31	1.74
54032561--54032603	22	2.0	22	86	9	61	37	0	0	62	0.95
54038066--54038109	23	1.9	23	86	9	63	47	0	2	50	1.13
54038034--54038111	23	3.3	22	75	21	61	50	0	1	48	1.09
54042174--54042247	29	2.7	26	85	8	85	28	12	28	31	1.93
54047758--54047801	23	1.9	23	86	9	63	63	6	2	27	1.31
54050063--54050131	29	2.4	29	77	13	72	59	1	1	37	1.15
54050068--54050135	31	2.3	29	80	7	75	60	1	1	36	1.15
54050439--54050484	20	2.4	20	85	7	60	28	2	4	65	1.23
54060627--54060814	59	3.2	58	68	10	157	42	3	4	50	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54060616--54060912	119	2.5	120	94	2	517	42	2	5	49	1.37
54060736--54060770	18	2.0	17	88	5	52	45	0	0	54	0.99
54060690--54060872	56	3.1	58	66	24	155	42	2	7	48	1.42
54060869--54060910	15	2.7	16	82	14	52	45	0	2	52	1.13
54060860--54060901	15	2.9	15	82	10	52	47	0	0	52	1.00
54061124--54061172	16	3.1	16	90	0	80	24	34	6	34	1.80
54065330--54065473	44	3.2	43	66	20	105	46	2	3	47	1.34
54065327--54065498	47	3.7	46	73	18	151	46	2	2	47	1.32
54065613--54065667	24	2.2	26	81	12	71	45	0	1	52	1.11
54065789--54065898	45	2.6	43	79	11	120	31	28	5	34	1.80
54065877--54065920	16	2.8	16	100	0	88	27	31	0	40	1.56
54066751--54066779	6	4.8	6	100	0	58	34	31	0	34	1.58
54076605--54076637	6	5.5	6	100	0	66	33	0	15	51	1.43
54080038--54080079	3	14.0	3	100	0	84	33	0	0	66	0.92
54080123--54080151	3	9.7	3	100	0	58	31	0	0	68	0.89
54084406--54084431	3	8.7	3	100	0	52	30	0	0	69	0.89
54087948--54087977	15	2.0	15	93	0	51	60	0	3	36	1.14
54095256--54095294	19	2.0	20	85	5	53	23	0	10	66	1.22
54095629--54095703	19	3.9	19	79	6	73	28	2	4	65	1.24
54095640--54095755	9	12.4	9	73	14	76	30	2	1	65	1.16
54095640--54095756	10	12.4	10	74	12	79	29	2	1	65	1.15
54106906--54106951	20	2.3	20	85	14	60	6	8	8	76	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54108306--54108333	10	2.8	10	100	0	56	10	17	21	50	1.77
54109628--54109654	14	1.9	14	100	0	54	44	3	7	44	1.49
54117869--54117949	37	2.2	38	95	2	146	41	2	1	54	1.21
54117985--54118099	58	2.0	58	84	3	151	52	13	1	33	1.50
54118135--54118283	27	6.1	27	76	18	150	53	12	0	33	1.39
54118135--54118293	49	3.4	49	84	11	228	54	13	0	32	1.39
54118251--54118374	21	6.0	21	72	14	98	57	12	0	29	1.42
54118077--54118376	122	2.5	118	78	11	314	55	13	0	31	1.43
54118328--54118374	22	2.1	22	96	0	85	61	10	2	25	1.39
54118251--54118447	82	2.4	81	83	8	229	55	12	1	30	1.44
54118737--54118792	13	4.5	13	75	8	53	55	3	0	41	1.17
54119010--54119034	13	1.9	13	100	0	50	56	20	8	16	1.65
54119106--54119162	11	5.4	11	74	21	59	38	3	0	57	1.16
54119098--54119163	30	2.2	30	100	0	132	36	3	0	60	1.12
54119106--54119229	41	3.0	41	80	11	153	41	2	0	56	1.12
54119098--54119190	30	3.1	31	87	7	104	35	2	0	62	1.07
54119176--54119213	11	3.5	11	85	7	51	50	2	0	47	1.15
54131315--54131372	30	1.9	31	92	3	100	39	6	18	34	1.78
54138958--54139184	113	2.0	113	98	0	436	35	20	17	26	1.94
54142029--54142411	189	2.0	189	90	2	599	23	26	18	31	1.97
54144356--54144412	29	1.9	29	82	3	69	54	10	12	22	1.68
54144743--54144792	22	2.1	25	85	10	70	46	2	8	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54145265--54145308	23	1.9	23	85	0	61	29	4	4	61	1.36
54148933--54148997	5	13.0	5	100	0	130	40	0	0	60	0.97
54149001--54149087	21	4.1	21	77	20	67	75	3	13	6	1.13
54149031--54149089	4	15.0	4	79	10	59	74	3	20	1	1.05
54149037--54149088	19	2.7	19	84	3	59	75	3	19	1	1.06
54149029--54149089	23	2.6	22	84	7	77	75	3	19	1	1.03
54149375--54149412	18	2.1	19	85	5	51	44	0	21	34	1.52
54149770--54149816	24	2.0	24	84	16	62	31	0	17	51	1.46
54161851--54161880	12	2.5	12	94	0	51	6	23	40	30	1.80
54162018--54162105	41	2.1	41	93	2	149	34	26	11	28	1.91
54168793--54168843	6	8.2	6	79	16	50	74	0	3	21	0.98
54176663--54176726	29	2.2	29	83	2	76	25	17	10	46	1.80
54178455--54178570	58	2.0	58	96	0	214	35	27	18	18	1.94
54183339--54183423	21	4.0	21	77	11	84	2	30	15	51	1.56
54184713--54184750	18	2.1	18	85	9	51	15	15	7	60	1.57
54184738--54184801	13	4.7	13	77	9	65	25	12	7	54	1.64
54184795--54184860	25	2.7	25	83	9	82	28	15	10	45	1.79
54184745--54184868	12	9.8	12	72	16	81	26	14	8	50	1.70
54187074--54187135	31	2.0	32	96	3	117	43	14	9	32	1.78
54192900--54192950	14	3.5	15	77	15	54	68	0	5	25	1.12
54193247--54193309	31	2.0	32	96	3	119	42	15	9	31	1.79
54199416--54199477	31	2.0	32	96	3	117	43	14	9	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54200012--54200120	49	2.2	49	98	0	209	26	9	46	17	1.78
54200140--54200259	31	3.9	31	94	3	215	53	0	8	37	1.37
54200140--54200259	63	1.9	61	94	3	213	53	0	8	37	1.37
54200579--54200659	39	2.1	39	100	0	162	55	9	14	19	1.67
54204203--54204264	21	2.9	21	80	2	70	32	22	4	40	1.75
54216125--54216168	17	2.4	18	82	17	56	75	2	0	22	0.92
54216192--54216254	31	2.0	31	90	0	99	31	20	3	44	1.67
54217142--54217210	28	2.4	28	85	7	84	42	15	8	33	1.78
54217226--54217281	27	2.1	27	82	0	67	35	1	1	60	1.17
54217227--54217288	19	3.3	18	73	10	54	35	1	1	61	1.16
54222525--54222568	24	1.9	24	86	9	65	38	0	2	59	1.10
54222665--54222692	9	3.1	9	100	0	56	57	10	0	32	1.33
54222635--54222844	68	3.1	68	94	1	361	44	8	5	40	1.59
54222833--54222874	16	2.6	16	96	0	75	45	7	0	47	1.30
54222848--54222909	23	2.7	23	87	5	81	50	1	0	48	1.10
54224917--54224949	16	2.1	16	94	5	59	15	27	21	36	1.93
54224909--54225003	36	2.6	36	88	8	140	17	24	24	33	1.96
54224952--54224980	14	2.1	14	100	0	58	20	27	20	31	1.98
54224966--54225009	22	2.0	23	95	4	81	20	22	25	31	1.98
54232296--54232371	23	3.3	23	80	7	100	21	22	27	28	1.99
54236672--54236707	2	18.0	2	100	0	72	0	50	0	50	1.00
54241680--54241704	13	1.9	13	100	0	50	40	48	0	12	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54241819--54241850	9	3.6	9	95	0	55	25	9	25	40	1.85
54243080--54243114	18	2.0	17	94	5	61	42	0	0	57	0.99
54244288--54244320	17	1.9	18	88	11	52	60	0	0	39	0.97
54246584--54246638	22	2.5	22	88	5	85	27	30	1	40	1.67
54246643--54246695	22	2.4	22	84	6	72	33	32	0	33	1.58
54246728--54246783	29	2.0	29	89	10	89	39	0	1	58	1.08
54246729--54246790	29	2.1	29	85	11	83	38	0	1	59	1.07
54246880--54246912	14	2.4	14	90	10	50	30	3	6	60	1.36
54247824--54247865	20	2.1	20	100	0	84	45	4	14	35	1.66
54247892--54247923	7	4.6	7	100	0	64	28	0	12	59	1.34

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   200   201   202   203   204   205   206   207   208   
          209   210   211