genome.fa.s17.2.7.7.80.10.50.1000.129.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  129  of  173  ( 20651 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)
39352257--39352292	17	2.1	17	94	0	63	38	5	2	52	1.39
39355079--39355176	17	5.4	17	66	13	61	32	3	14	50	1.58
39355094--39355185	17	5.0	18	68	15	71	34	3	15	46	1.62
39355074--39355185	37	3.0	37	93	0	188	33	3	15	47	1.62
39355183--39355274	9	9.6	9	82	13	103	22	7	28	41	1.81
39355183--39355276	20	4.8	20	89	2	147	22	7	27	42	1.80
39358811--39358888	21	3.7	20	75	21	61	39	2	2	55	1.27
39366745--39366775	3	10.3	3	100	0	62	32	32	0	35	1.58
39371846--39371877	16	2.0	16	93	0	55	25	15	0	59	1.36
39372105--39372295	51	3.8	51	79	8	237	29	28	17	24	1.98
39372103--39372287	101	1.8	102	91	3	311	29	27	18	24	1.98
39391057--39391113	21	2.8	20	81	7	69	3	12	8	75	1.16
39391820--39391879	31	2.0	31	93	6	106	31	10	16	41	1.81
39392421--39392467	20	2.3	20	96	0	85	72	14	12	0	1.13
39392522--39392602	40	2.1	39	97	2	153	19	14	2	62	1.42
39398053--39398112	31	2.0	31	93	6	106	31	10	16	41	1.81
39399291--39399321	15	2.1	15	100	0	62	38	12	12	35	1.82
39405153--39405308	75	2.1	75	86	4	226	43	7	10	39	1.66
39412524--39412764	50	4.7	50	80	4	216	24	27	20	27	1.99
39441096--39441159	24	2.7	24	87	0	83	40	4	7	46	1.53
39443149--39443187	20	2.0	20	89	0	60	66	0	2	30	1.05
39453074--39453162	25	3.6	25	74	6	90	39	25	12	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39453055--39453178	50	2.5	50	89	0	185	37	24	12	25	1.91
39453147--39453194	25	1.9	25	82	0	60	37	20	14	27	1.92
39458856--39459110	131	1.9	131	87	4	372	25	29	19	26	1.98
39460345--39460395	25	2.0	25	85	11	68	37	15	15	31	1.89
39461666--39461796	67	2.0	67	95	0	235	28	32	17	21	1.96
39461865--39462012	57	2.5	60	82	9	178	23	24	20	31	1.98
39464976--39465005	12	2.4	13	94	5	53	10	20	36	33	1.86
39474838--39474871	14	2.4	14	100	0	68	29	20	11	38	1.88
39479117--39479178	31	2.0	31	100	0	124	35	12	22	29	1.91
39484807--39484856	26	2.0	24	85	11	66	66	4	18	12	1.39
39486888--39486934	19	2.5	19	100	0	94	44	4	0	51	1.21
39487464--39487619	50	3.1	49	69	3	150	33	22	21	23	1.97
39487332--39487702	100	3.7	100	82	4	419	29	23	23	23	1.99
39487332--39487702	199	1.9	199	81	2	449	29	23	23	23	1.99
39487618--39487786	85	2.0	84	86	4	232	26	27	23	21	1.99
39492152--39492200	3	16.0	3	79	12	55	34	2	2	61	1.19
39492155--39492196	17	2.5	17	92	0	66	35	2	2	59	1.23
39497002--39497075	6	12.7	6	81	5	53	68	9	9	12	1.38
39496979--39497063	34	2.5	34	92	1	134	68	10	10	10	1.41
39498399--39498838	175	2.5	175	93	0	763	31	18	21	28	1.97
39498526--39499023	44	11.3	46	66	14	179	32	19	20	27	1.97
39498706--39499023	132	2.4	132	91	0	528	33	19	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39499017--39499387	100	3.7	99	83	4	415	30	25	22	21	1.99
39499139--39499298	50	3.2	50	71	5	162	34	21	20	23	1.97
39499139--39499387	50	5.0	50	70	1	151	32	23	21	22	1.98
39499302--39499465	86	1.9	85	88	3	249	28	28	23	20	1.99
39500879--39500920	17	2.5	17	92	0	66	35	2	2	59	1.23
39500876--39500921	20	2.3	20	85	7	58	34	2	2	60	1.21
39503074--39503182	47	2.2	48	83	6	139	34	28	13	22	1.93
39503129--39503236	53	2.0	53	85	3	146	35	25	12	26	1.92
39515156--39515186	15	2.1	15	100	0	62	25	12	25	35	1.92
39517163--39517291	63	2.0	63	88	2	188	15	24	17	42	1.88
39517121--39517299	21	8.5	21	70	8	105	16	21	17	43	1.88
39518051--39518143	42	2.2	42	90	0	141	17	20	35	26	1.94
39526098--39526127	13	2.3	13	100	0	60	53	10	0	36	1.35
39527315--39527366	24	2.2	24	85	0	68	48	11	3	36	1.58
39531641--39531692	24	2.2	24	85	0	68	50	5	3	40	1.45
39533251--39533282	14	2.1	16	88	11	50	0	21	0	78	0.76
39543241--39543299	30	2.0	30	83	12	77	52	1	6	38	1.38
39543381--39543429	20	2.4	21	87	12	68	65	4	4	26	1.29
39543376--39543447	19	3.6	21	83	10	73	62	4	5	27	1.36
39543389--39543447	19	2.9	20	87	7	75	61	5	3	30	1.34
39546642--39546679	19	2.0	20	89	5	60	31	0	2	65	1.06
39547769--39548008	120	2.0	120	92	1	401	33	0	24	41	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39553321--39553390	25	2.8	25	84	0	86	31	18	31	18	1.95
39558318--39558364	13	3.4	14	79	8	51	61	27	4	6	1.39
39558714--39558788	34	2.2	34	83	9	91	62	1	28	8	1.31
39568540--39568591	20	2.6	20	87	0	77	50	0	25	25	1.50
39577073--39577166	40	2.3	40	74	0	98	23	21	19	36	1.95
39577005--39577172	80	2.1	80	82	2	203	25	20	18	35	1.95
39583850--39583895	18	2.6	18	92	0	83	32	23	0	43	1.54
39586798--39586837	21	2.0	21	90	5	64	35	0	25	40	1.56
39603301--39603332	3	10.7	3	93	0	55	0	0	28	71	0.86
39611690--39611758	34	2.0	34	100	0	138	18	31	0	49	1.48
39614557--39614608	18	2.9	17	80	13	52	34	0	15	50	1.45
39622426--39622469	21	2.0	22	82	4	54	50	18	15	15	1.79
39625172--39625247	23	3.3	23	86	0	116	23	21	23	31	1.98
39630561--39630603	18	2.4	18	80	0	50	41	4	25	27	1.75
39636055--39636125	36	2.0	35	88	2	106	40	15	19	23	1.90
39638315--39638340	11	2.4	11	100	0	52	26	46	7	19	1.77
39644599--39644651	23	2.3	23	93	0	97	20	20	26	32	1.98
39651670--39651708	18	2.2	17	86	13	53	33	0	20	46	1.51
39651934--39652009	23	3.3	23	94	0	134	21	19	26	32	1.97
39657634--39657819	44	4.2	44	80	2	196	31	26	17	24	1.97
39657634--39657868	131	1.8	129	83	5	312	32	27	16	23	1.96
39657881--39657918	17	2.2	18	90	4	60	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39658893--39658923	16	1.9	16	100	0	62	38	12	12	35	1.82
39659907--39659946	21	2.0	21	90	5	64	37	0	5	57	1.21
39661197--39661222	8	3.2	8	100	0	52	65	11	11	11	1.48
39661978--39662115	41	3.4	41	90	2	206	31	24	17	26	1.97
39662162--39662299	40	3.5	40	76	3	118	21	18	19	40	1.92
39663819--39664196	27	14.0	27	85	1	400	42	21	16	18	1.89
39663823--39664196	81	4.6	81	85	2	473	43	21	16	18	1.88
39663821--39664197	54	7.0	54	83	0	468	42	21	16	19	1.89
39665938--39665963	11	2.4	11	100	0	52	26	46	7	19	1.77
39671288--39671357	36	1.9	36	91	0	113	45	15	20	18	1.85
39679986--39680023	16	2.3	17	81	9	51	57	5	0	36	1.21
39682192--39682234	22	1.9	23	85	4	61	46	2	6	44	1.43
39682430--39682542	57	2.0	57	92	0	190	46	8	5	38	1.58
39682959--39683036	33	2.4	32	85	10	106	38	0	2	58	1.12
39683015--39683052	19	2.0	19	100	0	76	42	0	0	57	0.98
39682983--39683059	19	4.3	19	73	17	74	40	0	1	58	1.06
39683122--39683222	23	4.5	21	84	9	87	43	0	1	54	1.11
39683138--39683222	23	3.7	23	90	4	127	45	0	2	51	1.13
39683121--39683224	22	4.7	22	83	9	122	42	0	1	55	1.10
39683208--39683243	16	2.2	16	100	0	72	36	0	0	63	0.94
39683302--39683347	11	4.2	10	89	10	56	15	2	8	73	1.16
39683603--39683646	19	2.4	19	92	3	72	52	0	4	43	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39691136--39691405	145	1.9	145	91	0	441	40	22	7	29	1.82
39691585--39691663	21	3.7	22	83	6	85	59	2	0	37	1.11
39691744--39691783	17	2.3	18	82	8	55	60	0	0	40	0.97
39691710--39691814	21	4.7	21	79	15	104	56	0	0	41	1.12
39691831--39691868	13	3.1	13	85	11	53	73	10	0	15	1.09
39701924--39701958	8	4.2	8	96	3	61	14	0	0	85	0.59
39702367--39702397	16	1.9	16	93	0	53	16	0	6	77	0.97
39703935--39704025	42	2.4	37	74	18	87	46	0	1	52	1.07
39703938--39704008	21	3.4	21	73	13	74	49	0	1	49	1.09
39703956--39704020	21	3.1	22	74	14	66	47	0	0	52	1.00

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