genome.fa.s7.2.7.7.80.10.50.1000.174.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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  174  of  204  ( 24458 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)
51911986--51912045	26	2.2	28	88	11	90	40	3	6	50	1.45
51912166--51912196	16	1.9	16	93	0	53	61	3	3	32	1.28
51915429--51915456	14	2.0	14	100	0	56	21	21	7	50	1.72
51917517--51917756	113	2.1	113	97	0	453	25	21	20	33	1.97
51927315--51927449	61	2.2	62	84	6	179	50	4	3	41	1.40
51930271--51930347	36	2.2	35	86	4	102	29	7	28	33	1.85
51935729--51935801	31	2.4	31	88	4	103	39	8	4	47	1.52
51936437--51936482	4	11.5	4	100	0	92	50	26	0	23	1.50
51942597--51942637	17	2.4	17	87	0	64	41	7	0	51	1.30
51948145--51948191	20	2.5	19	75	6	51	55	2	2	40	1.24
51948499--51948542	22	2.0	21	91	4	70	40	4	13	40	1.65
51951275--51951313	21	1.9	21	89	5	62	33	20	2	43	1.65
51956739--51957131	133	3.0	130	82	4	439	22	18	19	39	1.92
51958560--51958599	20	2.0	20	85	0	53	67	0	2	30	1.04
51961620--51961676	6	9.5	6	82	0	51	0	38	24	36	1.56
51961620--51961676	15	4.0	15	80	13	75	0	38	24	36	1.56
51963109--51963133	12	2.1	12	100	0	50	8	16	32	44	1.76
51964376--51964418	20	2.1	21	86	4	61	32	2	2	62	1.20
51965069--51965984	458	2.0	458	100	0	1832	27	20	18	33	1.96
51967653--51967682	2	15.5	2	93	6	53	46	0	0	53	1.00
51974311--51974363	17	3.5	17	66	28	55	39	15	5	39	1.70
51974310--51974366	28	2.0	28	100	0	114	40	14	7	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51981245--51981276	2	16.0	2	100	0	64	50	0	0	50	1.00
51983985--51984054	24	3.0	23	75	10	61	54	0	0	45	0.99
51983990--51984026	18	2.1	17	90	5	56	59	0	0	40	0.97
51985608--51985644	9	4.1	9	92	0	65	45	13	10	29	1.77
51985858--51985917	30	2.0	31	86	3	86	20	40	0	40	1.52
51992482--51992590	31	3.5	32	86	3	168	57	1	1	38	1.20
51993110--51993215	21	5.0	21	73	2	61	39	29	6	24	1.80
51993237--51993280	7	6.3	7	89	0	70	29	43	13	13	1.83
51994977--51995023	25	1.9	25	86	4	69	44	4	10	40	1.59
51996998--51997035	20	1.9	20	88	0	58	15	26	26	31	1.96
52009265--52009324	28	2.3	25	76	20	68	35	0	5	60	1.19
52012359--52012417	20	3.0	19	78	7	64	55	3	0	40	1.16
52012493--52012522	2	15.0	2	100	0	60	50	0	0	50	1.00
52014392--52014424	16	2.0	17	94	5	59	60	6	9	24	1.49
52014702--52014736	6	5.8	6	87	12	54	28	0	51	20	1.47
52018062--52018163	22	4.7	22	70	17	63	62	0	4	31	1.23
52018175--52018211	17	2.1	18	90	5	58	67	2	2	27	1.17
52035935--52036280	61	5.7	61	90	0	494	28	19	19	32	1.96
52037136--52037174	20	2.0	20	84	0	51	17	20	23	38	1.93
52037858--52037908	11	4.9	11	76	9	54	52	0	0	47	1.00
52037858--52037949	30	3.0	31	85	7	127	57	0	1	41	1.06
52037874--52037988	40	2.9	39	85	11	137	62	0	2	34	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52037870--52037960	30	3.0	30	80	6	87	59	0	2	38	1.10
52037905--52037986	30	2.8	29	81	10	78	65	0	3	30	1.09
52040016--52040041	6	4.3	6	100	0	52	30	15	15	38	1.88
52041278--52041302	6	4.2	6	100	0	50	48	16	0	36	1.46
52041304--52041360	16	3.5	15	79	15	53	70	3	3	22	1.18
52041409--52041452	14	3.0	14	80	9	52	70	0	9	20	1.14
52043168--52043239	22	3.3	22	80	0	72	61	13	11	13	1.58
52052879--52053119	50	4.7	50	83	5	236	23	27	22	26	2.00
52057917--52057991	39	1.9	39	94	0	132	65	1	9	24	1.30
52060971--52061033	28	2.4	27	89	10	103	42	9	0	47	1.36
52061211--52061265	18	2.9	19	78	5	76	50	0	10	38	1.37
52061310--52061431	37	3.3	37	98	0	235	48	0	13	38	1.42
52061310--52061431	18	6.6	19	79	5	142	48	0	13	38	1.42
52061384--52061581	92	2.1	92	97	0	369	43	6	9	41	1.61
52061421--52061571	55	3.1	55	64	31	158	41	7	9	41	1.66
52061211--52061523	166	1.9	166	100	0	626	45	3	10	39	1.57
52061481--52061515	18	1.9	18	88	0	52	48	0	11	40	1.39
52062201--52062265	28	2.4	28	94	2	114	47	0	10	41	1.38
52067925--52068016	45	2.0	45	97	0	175	28	40	4	27	1.75
52079008--52079055	25	2.0	24	88	12	71	47	2	20	29	1.61
52098845--52098869	2	12.5	2	100	0	50	0	0	48	52	1.00
52110136--52110213	31	2.5	30	79	4	84	43	3	7	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52113519--52113562	22	2.0	22	82	8	54	45	2	9	43	1.48
52113586--52113624	20	2.0	19	95	5	69	41	0	0	58	0.98
52113586--52113622	11	3.5	11	85	10	51	40	0	0	59	0.97
52113580--52113623	20	2.3	19	88	11	63	38	0	0	61	0.96
52121168--52121200	15	2.2	15	100	0	66	45	18	9	27	1.79
52122870--52122912	23	2.0	22	86	9	61	41	4	9	44	1.57
52122965--52123003	19	2.1	19	85	9	53	74	2	15	7	1.15
52123008--52123064	26	2.1	27	84	9	73	66	1	29	1	1.12
52123027--52123073	22	2.1	21	85	14	60	63	0	31	4	1.13
52124048--52124147	37	2.6	38	74	6	94	23	20	29	28	1.98
52127262--52127310	21	2.3	22	86	10	75	42	0	0	57	0.99
52128859--52128975	37	3.0	40	75	8	114	36	22	14	26	1.92
52129135--52129181	24	2.0	24	84	16	62	51	17	0	31	1.46
52129854--52129898	4	11.5	4	78	21	51	0	24	0	75	0.80
52129855--52129897	17	2.4	19	85	14	65	0	23	0	76	0.78
52134157--52134198	20	2.1	20	86	0	57	47	0	7	45	1.30
52134798--52134903	25	4.2	25	76	12	103	36	24	15	23	1.93
52134801--52134899	50	2.0	50	95	0	180	38	25	13	23	1.91
52144484--52144536	13	4.1	13	80	0	61	37	26	5	30	1.79
52149935--52149959	3	8.3	3	100	0	50	0	32	0	68	0.90
52149407--52150167	383	2.0	372	95	2	1351	33	15	12	38	1.85
52152705--52152781	26	3.0	26	96	0	145	44	7	18	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52157583--52157615	9	3.6	9	95	4	57	66	9	0	24	1.20
52165205--52165246	18	2.4	18	80	11	52	26	21	14	38	1.91
52165315--52165687	139	2.7	139	82	6	448	28	26	10	34	1.90
52168043--52168068	11	2.4	11	100	0	52	42	0	0	57	0.98
52169522--52169593	22	3.3	22	94	0	117	30	16	27	25	1.97
52169642--52169698	29	2.0	29	96	0	105	21	22	5	50	1.68
52169668--52169791	45	2.9	44	89	5	175	22	16	13	46	1.82
52172184--52172226	22	1.9	22	81	13	52	58	0	2	39	1.11
52174794--52174890	42	2.3	43	87	7	137	24	22	4	48	1.68
52174856--52174951	28	3.0	33	69	20	87	20	18	5	55	1.62
52178017--52178047	6	5.2	6	100	0	62	32	0	19	48	1.49
52184623--52184657	4	8.8	4	100	0	70	48	0	0	51	1.00
52197143--52197191	6	8.2	6	100	0	98	32	0	16	51	1.45
52198558--52198583	13	2.0	13	100	0	52	15	38	15	30	1.88
52200490--52200551	25	2.5	25	97	0	115	29	9	19	41	1.83
52200940--52200998	29	2.0	29	100	0	118	52	10	10	27	1.67
52200940--52201009	29	2.4	29	92	4	106	52	11	10	25	1.68
52201983--52202086	52	2.0	52	100	0	208	25	19	17	38	1.93
52204745--52204896	28	5.6	28	69	10	88	42	0	3	53	1.22
52204745--52204960	109	2.0	106	85	12	291	42	0	4	52	1.27
52204745--52204988	100	2.3	105	84	12	301	42	1	4	52	1.28
52204929--52204992	26	2.6	25	75	18	62	45	3	3	48	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52205115--52205220	44	2.5	41	77	18	126	36	30	2	30	1.72
52205132--52205223	46	2.0	46	91	4	152	40	30	3	26	1.72
52205208--52205255	24	2.0	24	95	0	87	31	31	8	29	1.87
52210883--52210928	16	2.8	17	83	3	58	58	2	2	36	1.22
52210924--52211005	41	2.0	41	87	0	119	45	12	7	35	1.69
52217585--52217747	80	2.1	76	86	7	224	46	12	14	25	1.81
52217736--52217779	21	2.1	21	83	8	54	63	2	9	25	1.35
52218576--52218601	7	3.7	7	100	0	52	11	46	0	42	1.40
52220712--52220859	13	11.5	13	74	8	124	36	4	6	52	1.47
52220704--52220851	40	3.8	38	83	7	122	35	4	7	53	1.48

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