genome.fa.s7.2.7.7.80.10.50.1000.119.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  119  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)
36346622--36346676	21	2.6	21	79	0	65	20	30	36	12	1.90
36349105--36349268	35	4.6	35	83	4	141	40	30	10	18	1.85
36349117--36349268	70	2.2	70	84	3	189	39	29	11	19	1.87
36355925--36355957	15	2.2	15	89	10	50	66	0	0	33	0.92
36355922--36355960	16	2.5	15	80	19	53	61	0	0	38	0.96
36363589--36363647	18	3.4	17	75	17	59	54	0	22	23	1.45
36364105--36364171	9	7.4	9	91	0	98	23	10	22	43	1.84
36364741--36364771	9	3.4	9	90	0	53	38	22	12	25	1.90
36365535--36365586	25	2.1	24	82	3	59	26	1	1	69	1.10
36367112--36367150	18	2.2	18	90	0	60	23	23	10	43	1.84
36370668--36371177	125	4.1	126	84	3	636	29	15	16	38	1.89
36371262--36371360	34	2.9	34	86	4	103	44	14	2	39	1.56
36371272--36371360	34	2.6	33	89	5	133	41	15	2	40	1.60
36371448--36371485	16	2.4	16	87	12	53	47	36	0	15	1.46
36372462--36372537	15	5.1	15	73	10	59	51	1	0	47	1.09
36372463--36372506	22	1.9	23	86	9	63	50	0	0	50	1.00
36375692--36375751	30	2.0	30	83	3	75	41	0	38	20	1.52
36377989--36378022	10	3.3	10	87	4	50	73	0	23	2	0.97
36377980--36378022	20	2.2	20	87	8	61	74	0	23	2	0.93
36377979--36378038	27	2.4	24	86	10	77	71	0	25	3	1.01
36378913--36378945	17	1.9	17	88	11	50	54	6	0	39	1.25
36379688--36379730	3	14.3	3	100	0	86	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36400042--36400219	88	2.0	88	95	0	320	30	20	10	38	1.86
36404148--36404416	90	3.0	90	77	5	294	27	25	14	31	1.95
36405770--36405826	19	3.1	19	87	7	82	57	5	0	36	1.21
36405830--36405896	10	6.9	9	74	15	55	70	2	2	23	1.15
36408018--36408126	34	3.1	34	73	10	112	28	24	23	22	2.00
36410018--36410089	27	2.7	27	86	0	99	40	23	15	20	1.91
36410019--36410105	27	3.2	26	83	3	93	40	20	18	20	1.92
36410298--36410352	26	2.1	26	89	0	83	20	20	25	34	1.96
36410449--36410543	28	3.4	28	81	7	122	23	24	22	30	1.99
36415645--36415789	27	5.3	27	78	2	137	41	21	16	20	1.90
36415675--36415789	54	2.1	54	87	3	160	41	21	16	20	1.90
36415981--36416035	26	2.1	26	82	0	65	23	20	18	38	1.93
36416132--36416254	28	4.4	28	93	1	203	22	25	23	28	1.99
36426245--36426271	5	5.4	5	100	0	54	18	0	0	81	0.69
36427340--36427478	75	1.9	75	87	6	210	43	11	12	31	1.79
36427460--36427878	138	3.1	138	90	2	639	40	9	5	44	1.60
36434047--36434193	74	2.0	75	89	4	226	45	8	14	31	1.75
36434228--36434452	66	3.3	67	65	20	162	42	6	5	45	1.52
36434169--36434586	137	3.1	137	92	2	675	40	8	6	44	1.60
36435284--36435346	31	2.0	31	100	0	126	49	22	3	25	1.65
36438508--36438550	22	1.9	22	85	4	59	39	16	4	39	1.69
36438759--36438807	17	2.8	17	73	14	55	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36448265--36448314	24	2.0	25	85	11	68	20	0	8	72	1.10
36460304--36460338	18	1.9	18	88	0	52	25	34	8	31	1.86
36489642--36489671	11	2.7	11	94	0	51	53	0	0	46	1.00
36490033--36490079	23	2.0	24	87	4	69	57	0	0	42	0.98
36494815--36494877	30	2.1	29	91	2	99	39	1	6	52	1.37
36495520--36495555	18	2.1	18	89	5	56	41	0	25	33	1.55
36495839--36495897	21	2.8	21	73	17	59	20	20	22	37	1.95
36500103--36500131	4	7.2	4	100	0	58	0	24	0	75	0.80
36500872--36500927	22	2.4	23	88	5	78	37	5	1	55	1.33
36506090--36506127	14	2.9	13	88	11	60	76	10	0	13	1.02
36506124--36506152	12	2.3	13	94	5	51	79	0	20	0	0.74
36506247--36506290	14	3.1	14	78	21	56	68	0	20	11	1.20
36507586--36508244	50	13.2	49	70	12	419	33	23	19	23	1.97
36507575--36508244	100	6.7	100	88	2	929	33	23	19	23	1.97
36508758--36508807	24	2.0	25	84	3	66	64	24	10	2	1.35
36509731--36509789	22	2.6	22	86	7	75	35	6	1	55	1.36
36510107--36510136	2	15.0	2	100	0	60	50	0	0	50	1.00
36511705--36511759	21	2.7	21	88	5	78	14	25	18	41	1.88
36515678--36515715	14	2.7	14	95	0	67	21	28	0	50	1.49
36515898--36516007	37	3.0	34	75	15	96	53	2	3	40	1.33
36515900--36516006	20	5.8	18	70	22	62	52	2	3	41	1.34
36519541--36519601	30	2.0	30	83	0	77	16	21	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36534748--36535213	160	2.9	154	69	16	367	31	11	8	48	1.69
36535276--36535331	27	2.1	27	93	0	94	10	32	14	42	1.80
36536057--36536215	34	4.7	34	80	13	154	0	27	0	71	0.90
36536092--36536297	4	51.8	4	71	22	82	0	29	0	69	0.95
36536083--36536167	27	3.2	27	81	5	84	0	29	0	70	0.87
36536057--36536209	67	2.3	68	84	10	206	0	28	0	71	0.91
36536059--36536262	10	19.3	10	66	19	85	0	27	0	71	0.94
36536095--36536296	40	5.1	39	73	24	156	0	28	0	70	0.95
36536195--36536306	36	3.1	36	73	16	106	0	33	0	65	0.99
36536152--36536262	46	2.4	46	93	3	186	0	26	0	72	0.97
36536183--36536298	5	24.6	5	72	11	52	0	31	0	66	1.04
36536152--36536296	46	3.2	45	85	9	143	0	28	0	69	0.98
36536429--36536472	22	2.0	22	100	0	88	54	0	9	36	1.32
36540859--36540993	50	2.8	48	80	4	148	28	22	28	20	1.99
36540811--36541048	49	4.7	50	78	9	166	28	21	26	23	1.99
36545503--36545584	36	2.4	35	84	10	98	58	15	0	25	1.38
36555351--36555433	41	2.0	41	100	0	166	30	16	19	33	1.94
36556029--36556057	14	2.0	15	93	6	51	27	6	13	51	1.66
36558230--36558269	22	1.9	20	85	10	53	40	5	5	50	1.46
36562957--36563253	50	5.8	50	82	2	290	28	19	28	23	1.99
36562968--36563253	150	1.9	152	81	5	353	27	19	28	23	1.98
36563384--36563441	29	2.0	29	100	0	116	44	6	13	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36566021--36566067	16	2.9	16	81	12	53	48	0	8	42	1.33
36569647--36569805	41	3.9	40	84	3	185	22	23	16	37	1.94
36576597--36576772	20	8.7	19	63	14	57	32	16	29	21	1.95
36576575--36576772	41	4.9	41	86	1	263	32	16	29	21	1.95
36576859--36576962	53	2.0	53	90	0	163	36	18	17	27	1.93
36578535--36578668	47	2.8	47	82	3	144	18	14	23	43	1.87
36583192--36583248	27	2.2	26	83	3	69	17	14	19	49	1.80
36596505--36596585	12	6.8	12	73	16	69	13	22	1	62	1.37
36596543--36596583	21	1.9	22	90	5	66	12	21	0	65	1.25
36596565--36596602	18	2.1	19	90	5	60	7	23	0	68	1.16
36596628--36596669	12	3.7	12	81	18	54	11	16	2	69	1.29
36602501--36602572	36	2.0	36	97	0	135	12	19	29	38	1.88
36605342--36605533	50	3.8	49	80	7	172	25	25	20	28	1.99
36608095--36608143	19	2.6	20	81	18	61	36	2	0	61	1.08
36622183--36622363	35	5.1	36	80	6	183	17	14	26	41	1.87
36630318--36630377	22	2.7	21	76	19	59	16	3	3	76	1.05
36630922--36630963	20	2.2	20	91	4	68	52	26	9	11	1.68
36634597--36634800	32	6.4	32	89	1	295	38	21	20	20	1.93
36634758--36634842	42	2.0	42	100	0	170	37	24	18	18	1.94
36635026--36635092	23	2.9	23	84	2	80	43	26	7	22	1.80
36635131--36635360	27	8.6	27	86	1	320	23	20	19	35	1.96
36635116--36635360	53	4.6	54	85	6	313	23	21	19	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36635112--36635357	80	3.1	79	84	5	318	23	21	19	34	1.96
36635111--36635360	107	2.4	107	85	4	346	24	21	19	34	1.96
36644490--36644522	16	2.1	16	100	0	66	36	24	6	33	1.80
36652686--36653143	226	2.0	224	94	2	794	42	17	13	26	1.87
36653376--36653437	20	3.1	20	76	17	65	32	19	38	9	1.84
36653430--36653552	40	3.1	39	77	6	122	32	17	26	23	1.96
36654616--36654797	47	3.8	46	79	7	166	24	12	29	33	1.92
36656294--36656331	18	2.1	18	100	0	76	31	5	28	34	1.80
36672741--36672923	51	3.6	50	78	6	163	24	17	27	30	1.97
36672741--36672925	101	1.8	102	89	3	293	23	17	28	30	1.97

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