genome.fa.s10.2.7.7.80.10.50.1000.69.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  69  of  202  ( 24201 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)
20387581--20387619	3	12.7	3	89	5	60	35	0	0	64	0.94
20392391--20392420	2	15.0	2	92	0	51	50	3	0	46	1.18
20392948--20393006	29	2.0	29	87	12	86	64	1	0	33	1.04
20392926--20393012	38	2.2	39	85	8	113	57	1	0	41	1.06
20392977--20393009	11	2.9	12	91	8	52	60	0	0	39	0.97
20393310--20393347	20	1.9	20	84	10	51	47	13	2	36	1.56
20408584--20408644	15	4.0	14	78	17	59	75	6	16	1	1.09
20410223--20410261	2	19.5	2	94	0	69	51	0	0	48	1.00
20416185--20416247	33	1.9	32	84	9	83	79	6	9	4	1.05
20416383--20416431	24	2.0	24	100	0	98	36	0	16	46	1.47
20418853--20418888	18	2.1	17	89	5	54	55	13	5	25	1.60
20418618--20419276	329	2.0	330	95	0	1194	35	19	13	32	1.90
20419311--20419391	32	2.5	32	77	16	96	25	32	0	41	1.56
20423906--20424116	106	2.0	106	86	1	298	30	19	18	30	1.96
20425028--20425053	3	8.7	3	100	0	52	65	0	34	0	0.93
20429546--20429575	13	2.2	14	94	5	53	40	40	10	10	1.72
20430833--20430922	45	2.0	45	84	2	119	27	6	27	37	1.82
20430843--20430946	44	2.4	43	80	12	117	32	6	26	33	1.83
20432047--20432094	3	16.0	3	100	0	96	33	0	0	66	0.92
20453575--20453670	45	2.2	43	86	3	129	32	16	21	29	1.96
20453789--20454231	89	5.0	89	84	1	478	29	16	25	28	1.97
20453792--20454161	177	2.1	177	86	1	517	29	16	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20453790--20454248	133	3.4	132	81	2	533	29	16	25	28	1.97
20454068--20454155	44	2.1	39	74	18	95	32	13	23	29	1.93
20454086--20454248	89	1.8	89	86	0	236	30	15	26	27	1.96
20455656--20455712	3	19.0	3	100	0	114	33	0	0	66	0.92
20457034--20457088	15	3.4	16	80	16	53	54	1	0	43	1.10
20457040--20457088	16	2.9	18	80	20	61	55	0	0	44	0.99
20462098--20462135	12	3.5	11	82	17	53	68	0	0	31	0.90
20465055--20465112	26	2.3	26	84	3	73	43	5	20	31	1.74
20470496--20470559	25	2.5	26	89	5	103	35	10	15	37	1.83
20471658--20471886	35	6.4	36	80	6	234	37	16	22	24	1.94
20471658--20471886	71	3.2	71	89	1	352	37	16	22	24	1.94
20473864--20473897	18	1.9	18	88	5	52	38	0	8	52	1.33
20473996--20474238	126	1.9	126	84	3	319	30	18	20	30	1.97
20474108--20474528	139	3.1	139	83	3	492	31	19	19	28	1.97
20478091--20478241	35	4.3	35	87	0	176	14	11	28	45	1.81
20480249--20480598	140	2.5	139	92	2	551	39	8	6	46	1.58
20486592--20486626	16	2.2	16	89	0	52	31	0	2	65	1.07
20505756--20505800	20	2.2	20	88	7	65	20	4	8	66	1.36
20520671--20520704	18	1.9	18	88	5	52	20	26	38	14	1.91
20521261--20521306	13	3.5	13	80	14	58	15	15	15	54	1.72
20523866--20523902	18	2.2	16	90	9	56	21	45	0	32	1.52
20531885--20531937	22	2.4	22	96	0	97	47	5	16	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20541915--20541943	15	1.9	15	100	0	58	20	13	0	65	1.26
20541979--20542018	13	3.2	13	82	7	55	12	5	15	67	1.38
20550776--20550808	2	16.5	2	100	0	66	48	0	0	51	1.00
20553315--20553339	6	4.2	6	100	0	50	32	0	0	68	0.90
20555100--20555141	16	2.6	16	84	3	57	45	2	2	50	1.27
20555275--20555315	20	2.0	20	90	0	64	51	0	0	48	1.00
20569695--20569736	19	2.3	19	87	4	59	40	7	19	33	1.78
20574244--20574293	23	2.2	24	82	13	61	36	4	6	54	1.44
20575539--20575584	23	2.1	21	84	11	58	60	6	2	30	1.34
20576503--20576573	36	2.0	36	94	0	124	26	12	12	47	1.77
20581610--20581663	17	3.1	16	71	19	54	29	12	14	42	1.83
20581604--20581674	36	2.0	36	94	0	124	28	11	14	46	1.78
20581604--20581655	19	2.9	18	72	16	54	26	13	13	46	1.80
20588744--20588852	54	2.0	54	96	0	200	40	22	5	32	1.77
20590900--20590960	2	30.5	2	96	0	113	49	0	1	49	1.10
20592623--20592657	17	2.0	18	94	5	63	11	0	17	71	1.14
20596393--20596446	27	2.0	27	82	7	65	37	35	16	11	1.84
20599456--20601169	668	2.6	641	89	3	2572	29	16	15	39	1.89
20600773--20600801	3	9.7	3	100	0	58	34	0	0	65	0.93
20604841--20604878	15	2.6	14	88	8	58	15	23	2	57	1.51
20606963--20607018	25	2.2	25	96	0	103	39	23	3	33	1.72
20616148--20616192	21	2.1	21	84	8	56	60	13	2	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20625230--20625325	31	3.1	31	95	3	174	31	9	13	45	1.75
20625873--20625936	25	2.6	24	76	9	67	76	7	12	3	1.11
20625923--20625966	17	2.8	16	83	10	54	79	9	11	0	0.93
20631589--20631683	31	3.1	31	98	0	181	31	9	13	45	1.76
20632237--20632324	25	3.5	25	95	0	158	15	19	23	40	1.90
20632405--20632487	25	3.3	24	80	12	87	15	25	24	34	1.95
20632407--20632474	26	2.7	25	86	4	91	14	27	25	32	1.95
20632441--20632534	25	3.7	26	79	9	97	20	25	21	32	1.97
20632441--20632545	25	4.2	25	77	9	90	20	25	21	32	1.97
20634481--20634555	17	4.4	17	77	3	78	20	16	28	36	1.93
20639289--20639382	47	2.0	47	91	0	152	31	9	26	31	1.88
20641382--20641423	21	2.0	21	100	0	84	28	14	14	42	1.84
20646138--20646167	16	1.9	16	93	6	53	66	0	6	26	1.16
20647859--20647890	6	5.3	6	96	0	55	15	56	0	28	1.40
20649900--20649941	18	2.4	17	78	21	50	54	2	0	42	1.13
20656176--20656607	97	4.6	97	89	5	613	38	2	19	39	1.63
20656644--20657058	126	3.3	126	91	1	670	33	17	20	28	1.95
20660730--20660786	30	1.9	30	92	0	96	8	10	47	33	1.69
20662369--20662401	11	3.0	11	95	0	57	51	0	21	27	1.48
20664544--20664600	30	1.9	30	88	0	87	29	49	10	10	1.71
20668480--20668868	94	4.1	94	90	5	595	39	19	2	39	1.64
20668480--20668868	189	2.0	189	90	3	611	39	19	2	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20671482--20671613	36	3.4	36	77	18	147	28	17	17	36	1.93
20671499--20671650	46	3.5	46	78	17	198	28	20	14	36	1.92
20671482--20671650	82	2.1	82	95	0	302	29	18	15	36	1.92
20678451--20678482	10	3.2	10	100	0	64	31	28	21	18	1.97
20683226--20683252	12	2.2	12	100	0	54	33	7	25	33	1.84
20686062--20686091	15	1.9	16	93	6	53	43	0	0	56	0.99
20687951--20687991	20	2.0	20	86	9	57	48	12	26	12	1.75
20694035--20694065	16	1.9	16	93	0	53	41	25	19	12	1.87
20694172--20694211	21	1.9	21	89	0	62	27	15	20	37	1.92
20694930--20694961	6	5.7	6	85	14	50	31	0	0	68	0.90
20698326--20698362	9	4.1	9	92	0	65	29	10	13	45	1.77
20699072--20699266	46	4.2	45	76	8	169	30	3	24	41	1.72
20699072--20699267	23	8.5	23	72	11	132	30	3	23	41	1.71
20699072--20699282	70	3.0	68	79	9	196	30	3	23	41	1.72
20699135--20699224	47	1.9	47	84	4	119	32	5	21	41	1.76
20699133--20699286	23	6.7	23	72	12	79	30	4	23	41	1.74
20699814--20699909	45	2.2	44	90	5	149	38	25	4	32	1.75
20699888--20699927	16	2.5	16	91	0	62	30	25	7	37	1.83
20702218--20702315	48	2.1	47	86	5	137	37	13	18	30	1.89
20708944--20708973	14	2.1	14	93	0	51	46	10	10	33	1.71
20710601--20710676	38	2.0	38	97	0	143	35	23	9	31	1.86
20711482--20711590	25	4.4	25	79	5	107	31	20	23	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20729754--20729848	25	3.8	25	83	6	122	30	22	23	24	1.99
20729763--20729859	50	1.9	50	81	4	115	31	23	21	22	1.98
20740966--20741126	82	2.0	82	96	0	295	40	6	8	44	1.60
20748292--20748428	70	2.0	70	97	0	256	36	5	11	45	1.65
20751143--20751218	37	2.1	37	97	0	143	25	11	15	47	1.80
20753051--20753087	4	9.0	4	96	3	65	48	0	0	51	1.00
20753218--20753263	10	4.8	10	82	17	62	73	2	10	13	1.17
20754082--20754111	14	2.1	14	100	0	60	36	13	16	33	1.88
20754297--20754326	14	2.1	14	93	0	51	10	43	10	36	1.72
20754949--20754980	16	2.0	16	93	0	55	31	15	12	40	1.85

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