genome.fa.s10.2.7.7.80.10.50.1000.168.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  168  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)
52459909--52460137	108	2.1	108	83	1	289	31	20	11	36	1.88
52460280--52460371	36	2.6	36	87	0	130	35	10	13	40	1.79
52460032--52460330	135	2.2	135	84	1	393	32	19	10	36	1.87
52466238--52466684	114	3.9	113	75	10	392	31	18	24	26	1.98
52466996--52467031	18	2.0	18	89	10	56	25	0	5	69	1.10
52467138--52467175	20	1.9	20	89	10	60	47	2	0	50	1.15
52467952--52467996	7	6.4	7	92	0	63	8	2	42	46	1.47
52468509--52468789	147	1.9	147	79	5	318	25	13	24	35	1.93
52470318--52470350	16	2.1	16	94	0	57	27	12	9	51	1.69
52470415--52470553	67	2.1	67	94	2	244	37	5	12	45	1.64
52470678--52470980	74	4.1	74	98	1	588	39	6	3	49	1.48
52470678--52470980	150	2.0	148	98	1	588	39	6	3	49	1.48
52471011--52471059	13	3.8	12	82	15	53	44	10	2	42	1.49
52471307--52471361	16	3.7	16	72	18	55	45	16	3	34	1.65
52471400--52471528	9	14.6	9	69	15	81	47	21	2	28	1.63
52476886--52477090	42	4.9	42	93	0	356	21	20	23	34	1.97
52478167--52478227	29	2.1	29	82	11	72	44	13	13	29	1.81
52484873--52485214	64	5.2	64	62	18	157	33	16	12	38	1.85
52484799--52485277	131	3.7	131	86	0	636	32	15	13	38	1.87
52487202--52487239	2	19.0	2	100	0	76	50	0	0	50	1.00
52502218--52502276	25	2.4	24	83	10	75	30	1	3	64	1.20
52505395--52505429	18	1.9	18	88	11	54	45	0	2	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52507854--52507904	20	2.4	21	83	6	59	5	25	3	64	1.33
52509759--52509823	31	2.1	31	97	0	121	40	6	23	30	1.79
52515446--52515479	4	8.0	4	93	6	50	23	0	0	76	0.79
52519709--52519747	19	2.0	19	85	5	51	64	0	2	33	1.08
52519778--52519842	19	3.4	18	72	14	58	61	1	3	33	1.21
52519787--52519897	29	3.8	29	80	9	120	61	0	6	32	1.21
52519757--52519877	58	2.1	57	83	9	147	64	1	4	29	1.22
52519788--52519940	10	15.9	10	69	19	85	62	0	5	31	1.24
52520104--52520162	29	2.0	29	87	6	84	32	3	3	61	1.29
52520104--52520176	29	2.4	29	82	13	78	31	4	2	61	1.29
52536476--52536601	54	2.3	54	80	2	137	17	30	23	28	1.97
52550478--52550633	33	4.6	33	68	26	94	17	19	28	33	1.95
52563964--52564049	43	2.0	42	84	2	109	31	17	20	30	1.96
52568913--52568937	13	1.9	13	100	0	50	32	4	8	56	1.47
52569036--52569334	50	5.8	50	87	2	391	25	22	30	21	1.99
52581681--52581715	2	17.5	2	100	0	70	48	0	0	51	1.00
52582171--52582201	5	6.2	5	100	0	62	0	19	61	19	1.35
52583715--52583747	16	2.1	16	100	0	66	36	6	36	21	1.78
52583727--52583816	45	2.0	45	89	6	139	28	5	27	37	1.79
52583727--52583835	45	2.6	43	80	12	129	32	6	27	33	1.82
52583937--52584011	18	4.1	18	71	21	57	60	0	0	40	0.97
52583944--52583990	13	3.8	13	81	13	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52583931--52583986	16	3.5	16	76	13	53	60	0	0	39	0.97
52583934--52584075	55	2.6	54	77	11	139	55	2	0	40	1.19
52588148--52588199	24	2.2	24	86	6	70	30	5	7	55	1.52
52589808--52589856	24	2.0	24	92	0	80	34	2	8	55	1.41
52596059--52596214	69	2.3	69	95	2	278	39	11	22	26	1.88
52602521--52602565	22	2.0	22	95	0	81	37	15	8	37	1.79
52605196--52605243	2	23.5	2	95	4	87	47	2	0	50	1.12
52613879--52613963	40	2.2	40	82	2	100	64	9	2	23	1.35
52613942--52614002	17	3.5	17	73	8	59	67	1	3	27	1.16
52615756--52615812	30	1.9	30	89	3	89	40	3	24	31	1.72
52618964--52619093	21	6.2	21	70	0	89	42	17	23	16	1.89
52618947--52619049	42	2.5	42	90	0	152	41	18	25	14	1.88
52618962--52619093	63	2.1	63	81	0	147	41	17	24	16	1.89
52626241--52626277	19	1.9	19	89	10	58	54	10	0	35	1.36
52626888--52626980	43	2.2	43	92	0	150	39	0	12	47	1.42
52626909--52626981	20	3.4	22	75	17	89	36	0	13	49	1.43
52627047--52627096	21	2.4	21	77	9	57	62	10	0	28	1.27
52627048--52627095	22	2.1	23	88	3	71	64	10	0	25	1.25
52627578--52627607	13	2.3	13	100	0	60	36	36	0	26	1.57
52634477--52634510	15	2.3	15	94	0	59	64	11	0	23	1.26
52634517--52634553	13	2.7	14	84	16	51	67	5	5	21	1.31
52634864--52634910	2	23.5	2	100	0	94	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)
52635027--52635071	2	22.5	2	100	0	90	51	0	0	48	1.00
52635192--52635302	3	37.0	3	94	0	195	65	1	0	31	1.09
52637530--52637957	44	9.7	43	63	12	111	28	24	17	29	1.98
52637515--52637969	132	3.4	132	92	0	741	29	23	18	29	1.98
52640742--52640801	23	2.6	22	75	15	59	70	10	16	3	1.29
52641327--52641388	17	3.5	17	76	10	70	12	3	37	46	1.58
52641310--52641382	36	2.0	36	100	0	146	16	2	36	43	1.62
52642300--52642372	31	2.4	31	90	0	110	20	12	39	27	1.88
52645485--52645547	30	2.1	30	85	11	85	20	52	0	26	1.47
52645645--52645704	30	2.0	31	86	3	86	20	40	0	40	1.52
52651554--52651584	15	2.1	14	94	5	53	61	19	3	16	1.48
52651653--52651719	33	2.0	33	88	0	98	53	17	7	20	1.68
52655721--52655752	16	2.0	16	93	0	55	25	15	0	59	1.36
52656006--52656246	50	4.8	50	83	3	268	29	26	15	28	1.96
52656716--52656773	30	1.9	30	85	0	80	29	25	6	37	1.82
52661994--52662037	23	1.9	24	90	9	74	38	2	22	36	1.67
52681022--52681091	20	3.5	20	84	5	79	30	11	14	44	1.80
52683064--52683124	28	2.1	29	85	8	81	45	0	13	40	1.43
52683088--52683206	33	3.6	32	78	12	123	42	0	15	42	1.46
52683081--52683206	66	1.9	66	87	4	175	44	0	14	41	1.45
52683249--52683756	127	4.1	125	80	7	518	38	16	16	28	1.90
52683515--52683748	117	2.0	117	89	3	355	38	17	15	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52687347--52687398	25	2.1	24	82	10	61	69	1	1	26	1.10
52703406--52703442	16	2.2	18	85	9	51	48	0	2	48	1.15
52703812--52703850	20	2.0	20	85	10	53	51	0	12	35	1.40
52705480--52705542	31	2.0	32	96	3	119	31	9	15	42	1.79
52706099--52706151	18	2.8	18	88	5	79	69	13	15	1	1.27
52711796--52711858	31	2.0	32	96	3	119	31	9	15	42	1.79
52717504--52717529	6	4.3	6	100	0	52	50	0	0	50	1.00
52718305--52718330	7	3.7	7	100	0	52	11	0	30	57	1.34
52726152--52726195	19	2.4	18	84	3	52	20	0	9	70	1.14
52726780--52726887	31	3.5	30	76	7	110	53	5	0	39	1.30
52726782--52726899	61	1.9	62	89	1	184	52	4	1	41	1.31
52747617--52747646	13	2.2	14	94	5	53	60	6	0	33	1.23
52756964--52756994	13	2.5	13	94	5	55	41	0	0	58	0.98
52757141--52757184	19	2.2	20	88	4	63	59	0	0	40	0.98
52759048--52759080	2	16.5	2	100	0	66	51	0	0	48	1.00
52763057--52763100	15	2.9	15	89	0	61	9	9	20	61	1.53
52763057--52763100	5	8.8	5	97	0	52	9	9	20	61	1.53
52766009--52766111	43	2.4	43	95	1	188	47	16	0	34	1.53
52782089--52782140	24	2.2	24	92	0	86	53	5	1	38	1.36
52782231--52782289	29	2.0	29	93	0	100	37	35	6	20	1.79
52782945--52782980	17	2.1	17	100	0	72	55	0	16	27	1.42
52784929--52785074	56	2.5	59	82	10	174	30	21	26	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52785196--52785327	67	2.0	67	96	0	246	18	18	34	27	1.95
52789995--52790046	24	2.2	24	92	0	86	51	7	3	36	1.49
52791936--52791967	16	1.9	16	93	6	55	31	0	0	68	0.90
52792212--52792259	23	2.0	24	88	8	71	25	2	0	72	0.95
52804333--52804615	41	6.7	42	71	10	164	32	18	20	28	1.96
52804327--52804615	127	2.3	127	91	0	461	31	19	20	28	1.97
52805967--52806069	3	34.0	3	86	9	147	33	0	1	65	1.04
52806095--52806158	28	2.3	27	82	10	76	40	3	1	54	1.25
52806153--52806202	25	2.0	25	84	7	66	24	4	0	72	1.02
52811841--52811895	15	3.9	15	79	20	73	41	0	0	58	0.98

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