genome.fa.s1.2.7.7.80.10.50.1000.105.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  105  of  187  ( 22383 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)
31045394--31045437	14	3.3	13	87	12	63	29	2	6	61	1.34
31045383--31045437	26	2.0	28	89	6	87	30	1	9	58	1.40
31051514--31051614	3	33.7	3	90	4	150	0	32	0	66	0.99
31054992--31055058	23	2.8	23	80	10	64	55	22	7	14	1.65
31059696--31059737	19	2.2	19	91	0	66	42	33	4	19	1.72
31066327--31066357	9	3.4	9	90	0	53	25	12	22	38	1.90
31076951--31076990	21	1.9	21	89	0	62	20	25	0	55	1.44
31077441--31077911	44	10.5	44	76	9	285	29	18	19	32	1.96
31077437--31077908	88	5.3	88	75	8	407	29	18	19	32	1.96
31077604--31077908	132	2.3	133	85	0	414	30	19	17	32	1.95
31077471--31077908	221	2.0	223	81	6	519	29	19	18	32	1.96
31085852--31085902	19	2.7	20	85	11	63	45	3	19	31	1.69
31085945--31085992	20	2.4	20	89	6	71	47	12	0	39	1.41
31090755--31090795	21	2.0	21	90	0	64	9	26	7	56	1.58
31093458--31093588	40	3.3	38	76	12	129	36	19	20	23	1.95
31093640--31093909	41	6.7	40	81	6	314	20	21	26	31	1.98
31093641--31093909	80	3.3	80	86	4	364	20	21	26	31	1.97
31094361--31094404	7	6.3	7	87	10	63	15	0	38	45	1.47
31094361--31094404	13	3.1	14	83	9	63	15	0	38	45	1.47
31095079--31095110	13	2.3	15	89	10	50	43	0	0	56	0.99
31098085--31098153	33	2.1	33	100	0	138	27	5	11	55	1.58
31098857--31099087	43	5.4	43	87	5	292	21	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31100615--31100651	19	1.9	19	88	0	56	40	16	13	29	1.86
31101855--31102039	101	1.8	102	91	5	313	24	17	27	30	1.97
31101847--31102039	51	3.8	49	76	13	169	24	16	27	30	1.97
31101961--31102041	26	3.2	26	65	28	73	23	14	28	33	1.94
31102263--31102294	16	2.0	16	93	0	55	59	0	15	25	1.36
31104800--31104877	31	2.6	31	85	4	106	53	8	15	21	1.69
31119178--31119226	9	5.4	9	85	0	71	8	44	14	32	1.74
31119172--31119226	18	3.1	18	81	0	74	10	45	12	30	1.77
31121666--31121759	13	7.1	13	79	4	107	52	5	6	36	1.50
31121666--31121759	40	2.3	40	90	0	143	52	5	6	36	1.50
31127290--31127314	13	1.9	13	100	0	50	36	0	16	48	1.46
31128669--31128698	13	2.3	13	100	0	60	40	43	0	16	1.48
31128839--31128906	9	7.4	9	83	9	84	22	10	26	41	1.85
31132827--31132967	57	2.4	59	83	11	182	26	22	25	24	2.00
31134157--31134501	172	2.0	172	95	0	618	37	22	12	27	1.90
31144655--31144690	18	1.9	18	88	5	54	72	8	16	2	1.21
31144818--31144872	23	2.3	25	79	20	64	3	18	7	70	1.25
31148638--31148684	23	2.0	23	84	8	60	38	2	2	57	1.23
31149596--31149651	29	1.9	29	85	7	78	32	1	10	55	1.45
31152618--31152650	14	2.3	15	94	5	59	57	0	3	39	1.14
31155757--31155860	53	2.0	53	96	0	190	60	11	21	6	1.53
31166435--31166487	2	26.5	2	100	0	106	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31174007--31174089	2	42.0	2	93	2	141	46	1	0	51	1.08
31182676--31182715	3	13.3	3	100	0	80	67	0	32	0	0.91
31183841--31184042	98	2.1	99	98	0	388	50	7	8	33	1.62
31184736--31184774	19	2.0	21	85	10	55	69	5	10	15	1.34
31184975--31185049	19	3.8	19	87	6	105	37	16	9	37	1.80
31184986--31185048	21	3.1	21	90	9	112	38	14	9	38	1.78
31187887--31187913	3	9.0	3	100	0	54	33	0	0	66	0.92
31187896--31189569	530	3.1	540	84	6	2164	36	11	15	36	1.84
31189742--31190043	41	7.4	41	86	3	412	17	20	33	28	1.95
31189742--31190043	163	1.9	163	88	1	462	17	20	33	28	1.95
31190481--31190513	14	2.4	14	90	10	50	24	3	45	27	1.68
31190700--31190748	14	3.4	14	83	5	62	22	0	38	38	1.54
31191475--31191512	13	2.8	14	88	8	60	57	0	5	36	1.21
31195080--31195178	45	2.3	42	85	5	135	25	16	28	30	1.96
31195154--31195202	24	2.0	24	100	0	98	32	16	28	22	1.95
31195109--31195244	67	2.0	68	91	2	220	28	16	28	26	1.97
31195178--31195264	43	2.0	43	93	0	147	25	18	28	27	1.98
31196186--31198334	547	3.9	546	83	3	2630	36	11	15	35	1.85
31200177--31200206	16	1.9	16	93	6	53	60	0	0	40	0.97
31201573--31201757	101	1.8	102	88	5	286	24	17	27	30	1.97
31201573--31201755	51	3.6	50	77	9	165	25	17	27	30	1.97
31201761--31201853	46	2.1	43	82	9	107	25	18	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31201983--31202014	16	2.0	16	93	0	55	59	0	15	25	1.36
31205377--31205411	18	1.9	18	88	11	54	8	5	5	80	1.03
31205389--31205416	13	2.2	13	100	0	56	7	7	7	78	1.09
31205605--31205746	29	4.8	30	80	4	146	38	2	23	34	1.70
31205649--31205747	30	3.3	30	83	4	128	42	3	22	32	1.69
31205759--31205791	5	6.4	5	96	3	57	21	0	0	78	0.75
31206045--31206579	75	7.1	75	88	1	689	33	18	19	28	1.95
31206857--31206908	19	2.7	21	77	14	58	11	25	13	50	1.75
31217994--31218047	27	2.0	28	92	3	92	5	16	48	29	1.69
31218139--31218185	15	3.0	15	81	9	58	10	8	0	80	0.89
31218160--31218195	18	1.9	18	94	5	63	8	11	0	80	0.90
31218148--31218204	18	3.3	17	74	13	55	7	10	0	82	0.84
31218157--31218223	15	4.6	15	78	12	77	4	16	0	79	0.90
31220380--31221878	547	2.8	542	83	5	1847	36	11	16	35	1.85
31224532--31224577	2	23.0	2	100	0	92	50	0	0	50	1.00
31224011--31225121	578	1.9	577	83	4	1457	37	11	15	35	1.83
31257124--31257212	45	1.9	47	84	8	121	22	21	16	39	1.92
31258823--31258866	20	2.2	20	95	0	79	31	2	20	45	1.64
31262225--31262257	6	5.5	6	100	0	66	84	0	0	15	0.61
31263769--31263851	28	3.0	29	73	19	86	68	1	6	24	1.19
31268395--31268452	17	3.4	17	87	0	80	12	29	37	20	1.89
31276706--31276779	24	3.0	25	84	5	107	44	8	27	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31276706--31276768	25	2.6	25	92	2	101	42	7	26	22	1.81
31276864--31276936	21	3.6	19	71	14	56	17	23	20	38	1.93
31284397--31284464	24	2.8	24	90	2	100	41	5	30	22	1.77
31286880--31286927	23	2.1	23	84	0	60	27	14	14	43	1.84
31301239--31301279	19	2.2	19	86	0	55	14	9	31	43	1.78
31303019--31303086	35	1.9	35	85	5	93	32	8	14	44	1.76
31306055--31306092	17	2.2	17	86	9	51	50	5	0	44	1.24
31311326--31311370	20	2.2	20	80	0	54	24	0	4	71	1.05
31314258--31316549	143	16.1	144	82	5	2507	36	10	15	37	1.81
31314685--31314950	132	2.0	132	84	5	342	38	8	14	38	1.77
31316400--31316724	181	1.8	180	87	4	494	36	9	14	39	1.78
31318138--31320730	143	18.1	142	76	8	1768	36	9	15	38	1.81
31318138--31320730	285	9.1	283	75	8	1600	36	9	15	38	1.81
31319257--31319920	229	3.0	212	78	10	681	35	9	14	39	1.80
31320663--31320796	66	2.0	66	83	0	169	41	8	18	31	1.80
31320729--31322619	142	13.0	142	69	11	751	38	8	14	38	1.77
31320729--31322619	143	13.0	141	68	11	723	38	8	14	38	1.77
31320729--31321375	144	4.5	143	81	4	691	37	8	14	39	1.77
31320096--31321715	638	2.5	640	81	6	1757	37	9	15	37	1.79
31321170--31321595	227	1.9	228	88	1	640	37	11	15	35	1.83
31321485--31321937	224	2.0	222	85	5	601	40	9	13	36	1.77
31321749--31322592	291	2.9	285	78	6	763	38	8	13	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31322707--31322878	86	2.0	86	82	4	213	34	9	18	38	1.82
31322791--31324448	142	11.6	143	77	6	1400	37	9	15	38	1.79
31324235--31324660	233	1.8	233	88	2	649	35	9	16	38	1.82
31323950--31324945	520	1.9	515	82	4	1245	35	9	15	38	1.81
31324468--31325963	142	10.5	140	77	7	1241	36	9	15	38	1.79
31325892--31326049	86	1.8	86	87	5	239	33	9	17	39	1.82
31325748--31326192	229	2.0	225	86	3	615	36	8	16	38	1.80
31326232--31327872	143	11.6	142	78	6	1463	37	9	14	37	1.80
31325962--31327875	285	6.8	285	78	5	1555	37	9	15	37	1.80
31327604--31327859	129	2.0	129	80	5	295	40	10	12	37	1.77

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