genome.fa.s26.2.7.7.80.10.50.1000.55.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  55  of  204  ( 24404 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)
16144760--16144802	20	2.2	20	83	8	52	51	2	25	20	1.60
16152967--16153028	23	2.6	24	82	14	67	61	32	3	3	1.28
16155119--16155168	18	2.8	18	93	0	91	24	12	28	36	1.91
16162016--16162124	29	3.8	29	72	11	89	28	24	17	29	1.97
16162107--16162381	61	4.5	61	75	3	205	28	27	13	30	1.94
16168305--16168335	16	1.9	16	93	0	53	45	0	29	25	1.54
16168693--16168729	9	4.1	9	92	0	65	29	10	13	45	1.77
16171826--16171890	24	2.5	26	85	7	80	30	29	12	27	1.93
16174175--16174235	28	2.2	28	83	11	74	21	16	18	44	1.87
16174308--16174378	30	2.4	30	85	4	90	29	21	14	35	1.92
16179617--16179726	41	2.7	41	89	0	175	31	19	24	24	1.98
16183484--16183517	17	1.9	18	88	5	52	61	14	23	0	1.33
16185773--16185895	47	2.6	46	81	2	147	39	5	16	39	1.72
16185758--16186056	159	1.9	161	92	4	505	39	6	15	38	1.73
16185950--16186219	47	5.7	47	81	3	342	39	7	16	36	1.76
16185913--16186248	96	3.5	96	97	0	609	39	7	15	37	1.75
16186355--16186447	41	2.3	41	86	0	123	16	22	30	31	1.95
16191447--16191542	27	3.6	27	80	2	104	31	18	16	33	1.94
16192385--16192418	3	11.0	3	87	6	50	67	2	29	0	1.05
16200460--16200502	22	2.0	20	86	8	59	48	2	0	48	1.14
16201184--16201242	27	2.2	27	87	0	82	18	30	33	16	1.94
16201297--16201420	10	11.9	10	73	21	71	69	0	29	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16201297--16201418	18	6.9	18	68	25	75	69	0	28	1	0.98
16201296--16201387	34	2.8	34	79	17	104	68	0	29	2	1.01
16201300--16201416	44	2.6	45	85	9	170	69	0	29	1	0.99
16201299--16201417	23	5.3	22	70	18	68	69	0	28	1	0.98
16201537--16201590	28	2.0	28	88	3	83	42	5	9	42	1.60
16201832--16203070	285	4.3	287	95	1	2161	50	5	12	31	1.64
16205798--16205842	18	2.5	18	92	0	72	15	48	4	31	1.65
16206486--16206607	63	2.0	62	88	0	172	46	11	4	36	1.62
16213448--16213474	13	2.1	13	100	0	54	37	7	7	48	1.59
16217379--16217411	15	2.2	15	100	0	66	21	12	12	54	1.69
16218726--16219002	43	6.5	43	81	5	287	31	28	16	23	1.96
16218726--16219002	86	3.3	85	84	4	319	31	28	16	23	1.96
16218726--16219002	129	2.2	127	83	4	335	31	28	16	23	1.96
16223418--16223605	89	2.1	89	88	3	279	45	25	1	27	1.60
16223608--16223655	14	3.4	14	82	0	51	33	37	0	29	1.58
16224117--16224316	41	4.9	41	83	0	229	31	26	19	23	1.98
16229675--16229723	22	2.2	21	79	10	53	22	26	0	51	1.49
16231522--16231564	18	2.4	18	88	0	59	18	27	9	44	1.80
16231803--16231845	21	2.0	22	82	13	54	32	41	18	6	1.77
16231961--16232228	49	5.5	49	94	0	448	41	2	9	45	1.52
16232052--16232135	29	3.2	29	62	28	78	42	2	9	45	1.49
16235434--16235815	125	3.1	123	88	1	550	32	18	15	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16244340--16244373	17	2.0	17	100	0	68	35	11	11	41	1.78
16244690--16244715	4	6.5	4	100	0	52	50	0	0	50	1.00
16245399--16245528	61	2.1	63	86	9	187	36	7	6	50	1.56
16247641--16247705	21	3.0	21	77	6	67	52	0	1	46	1.10
16247711--16247754	21	2.0	23	86	8	65	36	0	2	61	1.09
16261806--16261843	20	1.9	20	94	0	67	34	5	15	44	1.69
16263029--16263104	39	2.0	38	89	2	116	53	6	0	39	1.27
16265216--16265273	31	1.9	29	82	6	71	31	5	12	51	1.61
16274118--16274169	21	2.5	21	93	0	86	30	36	9	23	1.87
16279777--16280325	40	13.7	40	93	0	927	30	20	27	22	1.98
16287474--16288021	40	13.7	40	93	0	934	30	20	27	22	1.98
16289855--16289888	15	2.3	15	100	0	68	50	14	11	23	1.76
16291955--16291984	12	2.4	12	94	5	51	73	3	16	6	1.18
16293119--16293167	22	2.3	22	78	3	55	40	26	10	22	1.86
16294302--16294355	20	2.7	20	73	0	54	37	18	27	16	1.93
16295214--16295257	21	2.2	20	83	4	52	61	6	0	31	1.22
16300581--16300752	84	2.0	84	95	0	308	33	14	19	32	1.92
16303954--16303999	23	2.0	23	86	0	65	23	8	21	45	1.80
16307338--16307371	17	2.0	17	88	0	50	35	23	11	29	1.90
16314126--16314263	72	1.9	72	86	5	197	42	7	7	42	1.60
16315843--16316130	114	2.5	114	83	5	359	26	17	25	31	1.97
16316807--16316864	28	2.1	28	90	0	89	17	1	48	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16317029--16317075	21	2.2	22	84	3	60	17	0	44	38	1.48
16317025--16317090	29	2.3	29	86	2	89	16	0	43	39	1.48
16317025--16317082	14	4.1	14	82	8	73	17	0	43	39	1.49
16316991--16317087	7	13.7	7	73	6	52	21	1	42	35	1.60
16321062--16321116	23	2.3	24	84	3	76	43	1	3	50	1.30
16324467--16324510	21	2.1	21	95	0	79	34	13	45	6	1.70
16324940--16325206	42	6.3	43	75	12	201	27	19	23	29	1.98
16325008--16325206	85	2.4	85	86	5	280	26	20	22	31	1.98
16324958--16325209	127	2.0	127	89	4	384	27	19	22	30	1.98
16325008--16325209	42	4.8	41	84	7	262	25	19	21	32	1.97
16326889--16326954	31	2.1	31	86	5	89	43	9	13	33	1.76
16330341--16330417	38	2.0	38	97	0	145	33	15	12	37	1.86
16331185--16331258	32	2.3	32	88	0	103	24	20	13	41	1.88
16336371--16336407	3	12.7	3	94	5	67	32	0	0	67	0.91
16338896--16338983	38	2.3	38	98	0	167	20	10	40	28	1.85
16342093--16342519	45	9.5	45	88	0	602	37	15	21	24	1.93
16342088--16342577	135	3.6	135	89	1	653	38	15	21	24	1.92
16342093--16342668	90	6.4	89	83	3	537	38	15	21	24	1.93
16342500--16342699	46	4.4	46	82	5	203	41	14	22	22	1.89
16342500--16342702	91	2.2	92	83	6	245	41	14	22	22	1.89
16342665--16342774	53	2.1	53	100	0	220	43	17	18	20	1.88
16344179--16344252	8	8.6	8	84	12	94	22	5	9	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16347500--16347566	20	3.3	20	75	8	73	22	23	16	37	1.94
16347491--16347593	40	2.6	40	89	3	145	24	25	18	32	1.97
16347513--16347574	20	3.1	20	68	13	56	27	25	17	29	1.98
16347520--16347607	20	4.4	20	71	8	63	22	23	18	35	1.96
16349637--16349776	25	5.6	25	74	5	122	37	23	12	25	1.91
16349637--16349775	50	2.8	50	88	0	188	38	23	12	25	1.90
16349689--16349795	25	4.5	22	71	23	67	37	25	13	24	1.91
16354785--16354841	27	2.1	27	93	3	98	45	17	17	19	1.86
16374408--16374640	42	5.5	43	77	9	185	35	24	15	23	1.94
16374416--16374607	85	2.3	85	91	0	305	35	26	14	23	1.93
16374416--16374646	85	2.7	85	85	2	277	35	25	14	23	1.94
16374623--16374672	26	1.9	26	91	0	82	26	30	22	22	1.99
16377912--16377993	42	2.0	42	82	4	103	30	24	14	30	1.95
16380508--16380640	43	3.2	42	80	7	162	33	26	18	22	1.97
16380985--16381039	28	2.0	28	100	0	110	40	27	7	25	1.82
16381782--16381813	13	2.6	13	90	9	50	34	9	12	43	1.75
16389024--16389050	12	2.2	12	100	0	54	14	22	33	29	1.94
16389903--16389942	21	2.0	21	85	5	55	27	22	12	37	1.90
16393142--16393168	14	1.9	14	100	0	54	29	0	25	44	1.54
16401778--16402355	138	4.2	138	87	1	811	45	5	8	40	1.58
16405184--16405247	25	2.6	25	73	9	76	23	25	21	29	1.99
16408412--16408527	50	2.3	50	83	2	144	25	25	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16409612--16409656	17	2.6	17	89	0	72	20	28	28	22	1.98
16417629--16417665	19	2.0	19	89	5	58	54	0	18	27	1.44
16419204--16419245	22	1.9	22	85	9	59	9	19	0	71	1.13
16419548--16419586	20	2.0	21	85	10	55	35	0	2	61	1.10
16421253--16421285	15	2.3	15	89	5	50	57	0	12	30	1.35
16421339--16421382	18	2.4	18	88	11	63	15	6	4	72	1.22
16421339--16421384	17	2.5	18	82	13	58	17	6	4	71	1.24
16434349--16434402	19	2.8	19	88	0	81	37	12	9	40	1.76
16437908--16437935	3	9.3	3	100	0	56	67	0	0	32	0.91
16441070--16441099	16	1.9	15	93	6	51	20	6	0	73	1.05

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