genome.fa.s2.2.7.7.80.10.50.1000.174.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  174  of  206  ( 24623 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)
53061340--53061379	11	3.5	11	86	6	53	30	2	0	67	1.04
53068112--53068217	52	2.0	52	85	0	140	48	1	16	33	1.57
53069795--53069833	21	1.9	21	89	5	62	35	5	0	58	1.20
53069838--53069868	3	10.3	3	100	0	62	32	0	0	67	0.91
53069994--53070020	2	13.5	2	100	0	54	48	0	0	51	1.00
53070219--53070268	19	2.5	20	75	12	50	42	14	2	42	1.56
53077638--53077815	92	1.9	92	95	0	320	31	25	10	32	1.90
53085813--53085843	16	1.9	16	93	0	53	35	29	0	35	1.58
53086607--53086635	15	1.9	15	100	0	58	27	27	13	31	1.94
53097125--53097194	27	2.7	25	84	4	77	30	22	24	22	1.99
53104861--53104910	19	2.6	20	84	12	77	48	0	6	46	1.27
53104876--53104956	40	2.0	40	85	4	110	60	0	2	37	1.10
53104909--53104977	17	3.9	17	78	12	61	63	0	2	33	1.09
53104908--53104957	18	2.8	18	77	14	59	64	0	2	34	1.05
53106884--53106913	5	6.0	5	96	0	51	3	20	0	76	0.92
53110701--53110762	29	2.1	29	100	0	124	14	20	14	50	1.78
53112255--53112405	42	3.6	42	83	3	178	40	16	26	16	1.90
53112247--53112404	21	7.5	21	69	2	93	39	17	26	17	1.91
53115705--53115756	9	6.3	9	84	8	51	53	30	0	15	1.42
53115703--53115766	8	8.0	8	81	6	60	51	32	0	15	1.44
53115724--53115755	7	4.4	7	96	4	55	50	37	0	12	1.41
53115724--53115768	22	2.0	22	86	0	63	51	35	0	13	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53123269--53123416	33	4.3	33	65	13	91	27	22	16	33	1.95
53123236--53123451	105	2.1	100	86	4	288	27	23	15	33	1.95
53125655--53125714	29	2.1	29	81	3	86	36	26	11	25	1.90
53130044--53130093	14	3.5	14	78	13	57	28	10	2	60	1.40
53130326--53130370	23	2.0	22	91	4	72	66	4	11	17	1.38
53152382--53152424	19	2.4	17	76	7	50	72	0	2	25	0.97
53155115--53155492	188	2.0	189	92	0	632	29	23	20	26	1.99
53157091--53157352	131	2.0	131	93	0	443	37	15	17	30	1.91
53164320--53164435	62	1.9	62	84	5	157	42	5	2	50	1.38
53166260--53166462	59	3.4	61	76	9	213	36	14	24	25	1.93
53166262--53166438	89	2.0	89	81	6	207	36	13	25	24	1.92
53166285--53166508	119	1.9	119	86	5	319	37	12	24	25	1.91
53166260--53166509	30	8.4	30	73	10	167	37	13	24	24	1.92
53173911--53174076	30	5.5	30	73	8	149	37	10	25	25	1.88
53173886--53174107	90	2.5	89	82	7	263	37	10	26	25	1.89
53176862--53176913	22	2.4	22	83	6	61	50	9	19	21	1.76
53180401--53180511	58	1.9	59	81	1	134	28	25	24	21	1.99
53183169--53183206	16	2.3	17	86	4	51	71	0	0	28	0.87
53183160--53183216	26	2.2	26	81	3	71	61	1	1	35	1.17
53189237--53189270	14	2.5	14	95	4	61	14	0	35	50	1.44
53189399--53189446	24	2.0	25	83	4	62	68	6	6	18	1.32
53192419--53192463	2	23.0	2	95	4	83	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53198701--53198834	18	8.0	17	70	17	93	39	0	2	56	1.20
53198701--53198895	100	2.0	99	81	9	227	41	2	3	52	1.30
53199004--53199052	16	3.1	16	93	0	89	36	4	36	22	1.73
53199402--53199443	16	2.5	17	88	7	59	54	0	2	42	1.13
53199264--53199584	124	2.6	122	86	8	456	48	4	4	42	1.44
53199889--53199925	16	2.2	17	86	13	51	54	0	2	43	1.14
53200028--53200205	47	3.9	47	69	16	115	47	3	3	45	1.38
53203337--53203374	16	2.4	16	95	0	67	26	34	2	36	1.71
53207344--53207396	26	2.0	26	100	0	106	22	22	11	43	1.85
53208721--53208758	19	2.1	19	85	5	51	18	10	7	63	1.50
53218314--53218356	22	2.0	22	100	0	86	37	13	25	23	1.92
53222836--53222880	2	22.5	2	100	0	90	51	0	0	48	1.00
53223686--53223718	6	5.5	6	100	0	66	51	15	0	33	1.43
53227769--53227794	2	13.0	2	100	0	52	50	0	0	50	1.00
53230109--53230135	2	13.5	2	100	0	54	51	0	0	48	1.00
53233471--53233562	43	2.1	43	89	0	139	32	27	11	28	1.92
53241700--53241756	23	2.4	23	80	8	62	36	15	10	36	1.82
53241856--53241882	14	1.9	14	100	0	54	74	0	0	25	0.83
53242349--53242400	24	2.2	24	89	0	77	28	21	7	42	1.80
53242644--53242692	9	5.4	9	90	0	80	26	12	22	38	1.89
53242642--53242692	18	2.8	18	100	0	102	29	11	21	37	1.89
53245158--53245183	5	5.2	5	100	0	52	19	19	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53245247--53245288	20	2.1	20	82	8	50	7	19	16	57	1.62
53248462--53248544	33	2.5	33	76	7	87	27	19	16	36	1.93
53251052--53251107	28	2.0	28	100	0	112	42	10	21	25	1.85
53251701--53251745	22	2.0	22	91	0	72	44	17	13	24	1.85
53255674--53255750	38	2.0	38	100	0	154	29	20	20	28	1.98
53257865--53257897	17	1.9	17	93	0	57	15	15	21	48	1.81
53260299--53260381	41	2.0	41	100	0	166	32	2	33	31	1.71
53261631--53261809	42	4.3	42	80	7	211	21	15	21	40	1.90
53261631--53261803	84	2.1	84	87	2	249	21	15	21	40	1.91
53262259--53262303	3	14.7	3	86	4	54	37	4	0	57	1.19
53265104--53265193	45	2.0	45	100	0	180	28	15	24	31	1.96
53266174--53266299	44	2.9	44	84	0	153	39	21	15	23	1.91
53268085--53268118	13	2.6	13	95	0	59	23	2	0	73	0.97
53273031--53273308	46	6.0	46	95	2	504	28	21	8	41	1.83
53273031--53273308	93	3.0	92	94	3	504	28	21	8	41	1.83
53273036--53273300	139	1.9	139	99	0	521	28	21	8	41	1.82
53273389--53273452	31	2.1	31	96	0	119	32	12	7	46	1.70
53273558--53273627	35	2.0	35	100	0	140	22	40	5	31	1.78
53274398--53274462	32	2.1	32	97	2	123	47	12	9	30	1.72
53277343--53277387	22	2.0	22	95	0	81	40	8	20	31	1.83
53277352--53277401	22	2.3	22	85	0	64	44	8	22	26	1.80
53283837--53284066	40	5.8	40	84	0	280	17	29	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53283837--53284017	20	9.1	20	65	9	91	17	29	19	33	1.94
53285090--53285189	48	2.1	48	90	3	157	36	4	19	41	1.70
53299660--53299705	6	7.7	6	92	0	65	43	0	39	17	1.49
53299660--53299705	12	3.8	12	94	0	74	43	0	39	17	1.49
53299660--53299705	18	2.6	18	92	0	74	43	0	39	17	1.49
53304263--53304317	24	2.3	24	84	6	67	29	3	29	38	1.74
53311857--53311928	10	6.3	11	74	17	58	40	4	0	55	1.19
53311842--53311913	38	1.9	37	91	5	119	36	2	0	61	1.11
53311894--53311952	10	6.1	10	82	7	77	45	1	0	52	1.10
53311879--53311951	10	8.1	9	79	11	62	41	1	0	57	1.07
53311943--53312001	29	2.0	30	81	15	70	38	0	3	57	1.15
53314486--53314530	16	2.9	16	83	6	56	51	0	15	33	1.44
53314575--53314620	16	2.9	16	90	0	65	50	0	17	32	1.47
53314475--53314647	90	1.9	89	95	1	310	39	3	17	39	1.66
53315870--53315909	2	20.0	2	94	0	71	52	0	0	47	1.00
53323448--53323493	19	2.4	19	85	7	58	47	10	19	21	1.80
53325778--53325823	2	23.0	2	95	0	83	52	0	0	47	1.00
53327148--53327198	26	2.0	26	88	3	77	45	0	3	50	1.20
53327161--53327296	57	2.4	57	86	1	182	50	2	1	46	1.23
53327165--53327324	57	2.8	57	81	4	171	51	2	1	43	1.25
53327880--53327993	58	2.0	58	100	0	228	36	16	18	28	1.93
53331269--53331326	10	5.4	10	74	22	55	1	17	6	74	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53336693--53336792	46	2.2	45	85	1	128	43	19	18	20	1.89
53336686--53336803	46	2.6	45	77	10	123	44	17	18	19	1.88
53336780--53336951	45	3.8	45	85	4	240	34	17	21	26	1.95
53336782--53336951	90	1.9	90	91	2	279	34	17	21	26	1.95
53336784--53336972	45	4.2	45	79	6	204	36	17	20	25	1.94
53336782--53336972	90	2.1	90	87	3	269	36	17	20	25	1.94
53336919--53337076	45	3.5	45	83	3	147	44	18	18	17	1.87
53336961--53337076	46	2.6	45	87	1	160	47	16	18	17	1.83
53344117--53344266	43	3.5	43	81	6	137	31	28	16	23	1.96
53344133--53344266	42	3.2	42	80	7	128	32	29	16	22	1.96

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