genome.fa.s5.2.7.7.80.10.50.1000.142.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  142  of  208  ( 24913 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)
43436444--43436563	29	4.2	29	82	11	133	30	14	21	34	1.93
43436495--43436955	12	38.2	12	85	2	548	26	6	24	43	1.77
43436437--43436959	8	65.8	8	84	6	301	26	7	24	41	1.82
43438008--43438072	35	1.9	33	81	12	78	27	3	6	63	1.33
43454464--43454507	22	2.0	22	100	0	88	31	13	4	50	1.62
43454797--43454838	2	21.0	2	95	0	75	47	0	0	52	1.00
43460161--43460487	41	8.0	41	89	3	426	22	22	26	28	1.99
43460157--43460487	124	2.7	123	87	2	459	21	22	27	27	1.99
43460488--43460532	20	2.2	20	84	0	54	24	6	6	62	1.44
43461134--43461193	28	2.1	28	84	6	77	30	0	38	31	1.58
43462214--43462253	21	2.0	20	90	9	64	35	40	0	25	1.56
43462639--43462693	3	18.3	3	100	0	110	32	0	0	67	0.91
43466596--43466826	43	5.4	43	85	0	284	22	17	32	26	1.96
43466594--43466826	129	1.8	128	86	0	340	22	17	32	27	1.96
43477956--43478179	94	2.4	93	85	3	288	30	20	20	28	1.97
43488789--43488819	13	2.4	13	94	0	53	6	38	6	48	1.55
43490924--43490962	20	2.0	20	85	10	53	58	2	0	38	1.12
43494701--43494752	26	2.1	24	85	7	68	44	1	1	51	1.23
43494831--43494865	18	2.0	17	88	5	52	45	0	0	54	0.99
43494831--43494885	16	3.4	16	80	16	53	49	0	1	49	1.11
43494987--43495021	18	2.0	17	88	5	52	45	0	0	54	0.99
43494819--43495134	156	2.0	157	96	0	580	48	5	3	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43495186--43495271	44	1.9	45	85	2	120	36	29	6	27	1.83
43495260--43495290	16	1.9	16	100	0	62	38	32	0	29	1.57
43502887--43502916	15	2.0	15	93	0	51	70	0	13	16	1.18
43503323--43503418	47	2.0	47	100	0	192	31	4	14	50	1.62
43504576--43504618	21	2.0	21	86	8	61	23	34	0	41	1.55
43505453--43505478	5	5.2	5	100	0	52	23	19	19	38	1.93
43516121--43516386	103	2.6	104	90	3	410	19	20	30	30	1.97
43520394--43520430	19	1.9	19	94	0	65	27	21	24	27	1.99
43528092--43528119	9	3.1	9	100	0	56	57	21	0	21	1.41
43529134--43529184	23	2.2	23	89	6	77	41	19	9	29	1.84
43532340--43532373	9	3.7	9	88	4	50	23	0	8	67	1.18
43532402--43532442	17	2.3	18	83	12	57	29	4	2	63	1.28
43532513--43532571	30	2.0	30	96	0	109	22	25	25	27	2.00
43532510--43532568	18	3.6	18	68	25	58	25	23	23	27	2.00
43532656--43532705	17	2.8	18	87	6	75	42	42	0	16	1.47
43532687--43532764	38	2.0	39	92	2	131	51	28	3	16	1.62
43532888--43532962	37	2.0	37	92	0	123	36	5	14	44	1.68
43540226--43540256	15	2.1	15	93	0	53	25	29	6	38	1.81
43542781--43542879	50	2.0	50	84	9	132	38	0	2	59	1.09
43542832--43542875	19	2.4	19	88	7	65	38	0	0	61	0.96
43546570--43546603	2	17.0	2	93	0	59	50	2	0	47	1.16
43548496--43548544	16	3.0	16	77	11	55	67	0	8	24	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43556012--43556074	2	32.5	2	88	6	94	46	1	0	52	1.10
43566237--43566305	35	2.0	35	97	0	129	47	11	13	27	1.76
43570381--43570422	20	2.1	20	95	0	75	40	2	35	21	1.66
43581689--43581726	5	7.6	5	100	0	76	42	18	0	39	1.50
43584620--43585036	67	6.3	67	81	3	416	37	15	21	25	1.93
43584617--43585067	134	3.4	132	79	5	471	37	15	21	25	1.93
43593989--43594024	13	3.0	13	84	15	51	63	5	8	22	1.43
43599238--43599299	26	2.4	27	76	10	76	27	19	9	43	1.82
43599211--43599309	25	3.9	26	67	9	69	33	16	9	41	1.79
43622850--43623065	40	5.6	39	67	18	121	23	23	19	33	1.97
43622890--43623101	36	5.7	36	65	14	115	23	24	19	32	1.98
43622847--43623112	76	3.5	76	84	4	313	24	23	19	32	1.98
43626659--43627010	41	8.6	41	81	6	342	25	19	23	32	1.97
43626659--43627008	82	4.3	82	80	6	381	25	19	22	32	1.97
43626659--43627008	123	2.9	123	82	4	388	25	19	22	32	1.97
43627411--43627443	14	2.3	15	94	5	59	30	0	33	36	1.58
43627465--43627739	136	2.0	137	78	4	288	30	1	25	42	1.65
43631891--43632038	43	3.4	44	81	5	169	24	19	25	30	1.98
43632206--43632238	17	1.9	17	93	0	57	48	0	0	51	1.00
43633400--43633459	30	2.0	31	83	3	77	41	0	38	20	1.52
43634344--43634403	20	3.0	20	73	11	59	61	1	1	35	1.16
43634344--43634394	21	2.5	21	80	3	59	62	0	1	35	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43638159--43638265	25	4.3	25	78	4	74	18	27	20	33	1.96
43638182--43638311	50	2.6	50	80	12	142	20	23	18	36	1.94
43638192--43638361	25	6.9	23	74	11	108	20	25	19	34	1.96
43640359--43640604	49	4.8	50	79	5	201	28	19	27	24	1.99
43640367--43640555	50	3.7	50	84	5	200	26	19	29	25	1.98
43645046--43645114	27	2.6	27	88	0	102	23	26	11	39	1.88
43648117--43648183	29	2.3	28	80	10	71	26	10	10	52	1.68
43652604--43652640	2	18.5	2	100	0	74	51	0	0	48	1.00
43652755--43652791	2	18.5	2	100	0	74	51	0	0	48	1.00
43655456--43655501	14	3.3	14	77	20	51	43	0	8	47	1.34
43669223--43669409	92	2.0	92	93	2	322	48	14	17	19	1.82
43669688--43669717	15	2.0	15	93	0	51	10	6	10	73	1.25
43671284--43671333	25	2.0	25	81	11	59	52	0	2	46	1.12
43671417--43671449	17	1.9	17	93	0	57	45	0	6	48	1.27
43671556--43671605	23	2.0	25	85	11	68	38	6	14	42	1.70
43673043--43673094	21	2.5	21	78	9	54	32	9	15	42	1.79
43674082--43674115	13	2.7	13	86	4	52	55	0	0	44	0.99
43674295--43674348	16	3.4	16	94	0	90	33	0	35	31	1.58
43674327--43674436	45	2.6	43	80	9	129	33	5	29	31	1.80
43674582--43674616	18	2.0	17	88	5	52	54	0	0	45	0.99
43674469--43674785	157	2.0	157	96	0	589	44	3	4	47	1.40
43674719--43674760	15	2.7	16	82	14	52	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43674728--43674769	15	2.9	15	82	10	52	52	0	0	47	1.00
43674754--43674941	61	3.1	61	68	14	190	48	5	2	42	1.41
43674717--43675012	120	2.5	120	92	3	499	50	4	3	42	1.37
43674838--43674880	15	2.8	16	82	10	63	55	0	0	44	0.99
43674757--43674940	57	3.1	58	67	22	164	48	5	2	42	1.41
43674979--43675011	17	2.0	17	88	5	50	51	0	3	45	1.16
43675070--43675106	18	2.0	19	94	5	67	45	5	0	48	1.25
43687273--43687323	13	3.9	13	89	0	66	31	27	7	33	1.85
43694026--43694065	21	2.0	21	90	5	64	70	0	10	20	1.16
43694303--43694376	32	2.3	32	80	13	82	45	2	2	48	1.30
43695027--43695084	10	6.0	9	78	13	53	34	12	0	53	1.38
43695027--43695133	39	2.8	38	80	11	121	34	9	0	56	1.32
43695027--43695133	19	5.6	19	72	10	76	34	9	0	56	1.32
43695035--43695247	10	23.6	9	68	19	72	33	4	2	59	1.31
43695052--43695149	46	2.1	47	78	12	105	32	6	1	60	1.28
43695128--43695173	23	2.0	22	84	12	58	23	0	4	71	1.03
43695156--43695237	19	4.4	19	72	14	64	35	2	2	59	1.24
43695087--43695219	70	1.9	70	90	6	216	33	3	2	60	1.24
43702992--43703042	20	2.6	19	87	9	68	49	19	3	27	1.66
43706261--43706372	42	2.7	42	95	0	206	40	3	7	49	1.48
43706354--43706397	16	2.8	16	77	16	56	38	2	0	59	1.10
43713092--43713133	20	2.1	20	86	0	57	66	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43713092--43713133	13	3.1	14	83	6	52	66	2	0	30	1.04
43718635--43718676	21	2.0	21	85	0	57	61	2	2	33	1.21
43718955--43719003	22	2.4	19	80	12	62	34	0	2	63	1.06
43720238--43720274	16	2.3	16	90	0	56	45	0	0	54	1.00
43725855--43725940	27	3.2	26	75	5	73	60	2	4	32	1.30
43727876--43727901	2	13.0	2	100	0	52	50	0	0	50	1.00
43729030--43729347	117	2.8	113	83	3	381	23	4	16	54	1.61
43730202--43730251	17	3.2	16	75	25	54	50	0	0	50	1.00
43732958--43732984	14	1.9	14	100	0	54	62	0	7	29	1.22
43737311--43737353	18	2.4	18	76	7	52	44	18	2	34	1.63

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