genome.fa.s5.2.7.7.80.10.50.1000.207.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   205   206   207   208   

This is table  207  of  208  ( 24913 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)
63431835--63431869	15	2.3	15	95	0	61	54	31	5	8	1.54
63433399--63433452	8	6.9	8	78	4	56	48	35	1	14	1.55
63436282--63436306	7	3.6	7	100	0	50	0	24	0	76	0.80
63438750--63439252	264	1.9	263	90	1	801	32	19	12	35	1.90
63441296--63441331	2	18.0	2	100	0	72	50	0	0	50	1.00
63446313--63446337	4	6.2	4	100	0	50	76	0	0	24	0.80
63446476--63446504	2	15.0	2	92	7	51	51	0	0	48	1.00
63447169--63447238	32	2.2	32	90	5	108	54	8	8	28	1.60
63451821--63452194	188	2.0	190	89	3	576	21	10	24	43	1.84
63459110--63459185	31	2.5	31	87	4	111	22	14	11	51	1.75
63467285--63467325	5	8.8	5	84	15	61	39	0	0	60	0.96
63467285--63467330	17	2.9	17	87	9	62	39	0	0	60	0.97
63467288--63467341	27	2.0	27	82	7	65	38	3	0	57	1.17
63467874--63467945	36	2.0	36	97	0	135	30	15	4	50	1.63
63472240--63472279	7	5.6	7	94	5	71	25	0	12	62	1.30
63475054--63475088	16	2.2	16	94	0	61	40	11	5	42	1.65
63478659--63478691	2	16.5	2	100	0	66	48	0	0	51	1.00
63480084--63480120	2	18.5	2	100	0	74	48	0	0	51	1.00
63481559--63481619	27	2.2	27	86	13	81	52	0	0	47	1.00
63496377--63496515	75	1.9	75	98	0	269	46	8	10	33	1.69
63510368--63510478	59	1.9	58	83	5	143	41	5	17	36	1.72
63510658--63510684	13	2.1	13	100	0	54	51	14	14	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63513355--63513406	22	2.5	20	81	9	52	46	19	11	23	1.82
63515050--63515093	18	2.3	20	81	14	58	65	4	2	27	1.23
63518384--63518417	16	2.1	16	94	0	59	23	5	23	47	1.73
63524152--63524297	60	2.5	60	88	5	208	39	8	15	36	1.77
63524507--63524555	22	2.3	20	79	6	53	34	4	0	61	1.15
63526549--63526587	2	19.5	2	100	0	78	51	0	0	48	1.00
63528661--63528706	23	2.0	23	86	0	65	56	2	2	39	1.24
63528948--63528980	17	1.9	17	93	0	57	51	0	6	42	1.26
63529535--63529577	22	2.0	21	82	17	52	69	0	4	25	1.07
63535588--63535695	49	2.2	49	98	0	207	18	19	16	45	1.86
63539515--63539556	6	7.0	6	88	0	57	59	0	4	35	1.19
63555525--63555551	3	9.0	3	100	0	54	33	0	0	66	0.92
63561504--63561566	30	2.2	29	88	5	92	38	1	0	60	1.07
63562319--63562368	22	2.3	23	79	10	59	58	2	2	38	1.21
63569081--63569127	23	2.0	23	95	0	85	29	0	19	51	1.47
63569519--63569585	30	2.2	30	86	7	91	50	10	16	22	1.75
63569746--63569791	22	2.0	23	83	4	58	26	4	10	58	1.50
63571298--63571357	31	1.9	31	93	0	102	46	6	11	35	1.67
63577651--63577688	4	9.5	4	100	0	76	23	0	26	50	1.50
63581781--63581824	15	3.1	15	87	9	58	25	45	0	29	1.54
63583405--63583430	5	5.2	5	100	0	52	42	57	0	0	0.98
63595354--63595394	11	3.7	11	83	0	55	19	14	9	56	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63599227--63599261	6	5.8	6	100	0	70	51	17	0	31	1.45
63606466--63606540	9	8.2	9	85	8	98	40	29	9	21	1.84
63606467--63606519	26	2.0	26	92	0	88	35	30	11	22	1.89
63606464--63606551	20	4.7	20	81	8	96	43	28	7	20	1.80
63606510--63606552	11	4.2	11	85	14	65	48	27	4	18	1.68
63612247--63612272	2	13.0	2	100	0	52	50	0	0	50	1.00
63615940--63615976	14	2.6	15	83	12	51	45	2	5	45	1.40
63622096--63622129	4	8.5	4	93	0	59	50	20	0	29	1.49
63622864--63622898	19	1.9	18	88	11	54	48	0	0	51	1.00
63640508--63640586	29	2.7	30	72	5	72	50	3	2	43	1.33
63640835--63640879	21	2.1	21	83	0	54	55	0	2	42	1.12
63645372--63645418	2	22.5	2	87	8	67	46	0	6	46	1.28
63655409--63655475	33	2.0	33	94	0	116	37	5	2	53	1.41
63687184--63687303	33	3.7	32	79	2	123	50	8	35	5	1.54
63687184--63687323	66	2.1	66	81	7	160	52	9	32	5	1.55
63687184--63687323	33	4.2	33	76	1	93	52	9	32	5	1.55
63692593--63692642	18	2.8	18	78	0	55	16	34	26	24	1.95
63702967--63703003	17	2.1	18	85	14	51	59	0	0	40	0.97
63704840--63705141	150	2.0	152	93	1	518	23	20	21	33	1.97
63707127--63707190	31	2.1	31	96	0	119	42	10	6	40	1.65
63713078--63713110	5	6.8	5	96	3	59	63	15	0	21	1.30
63713912--63713988	14	5.0	15	71	20	52	42	14	9	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63713928--63713967	20	2.0	20	90	0	62	50	12	10	27	1.72
63713916--63713982	34	1.9	35	90	3	109	46	13	8	31	1.74
63717500--63717568	30	2.3	30	78	12	79	50	13	0	36	1.41
63717772--63717826	26	2.1	26	83	6	67	47	18	18	16	1.83
63718009--63718105	31	3.2	31	73	8	90	27	8	11	52	1.65
63722712--63722738	4	6.8	4	100	0	54	25	0	74	0	0.83
63725025--63725068	22	2.0	23	86	8	65	36	0	0	63	0.95
63741322--63741358	17	2.1	18	90	5	58	54	2	2	40	1.29
63743478--63743592	42	2.7	42	83	0	158	14	25	16	43	1.86
63744367--63744473	40	2.7	39	82	5	124	28	21	22	28	1.99
63744713--63744753	15	2.8	15	88	3	57	14	0	43	41	1.45
63745300--63745333	15	2.3	15	100	0	68	29	23	5	41	1.78
63745599--63745633	14	2.7	13	91	8	54	25	22	2	48	1.64
63748264--63748545	42	6.6	42	80	9	304	23	15	23	37	1.93
63748251--63748547	85	3.5	84	87	3	425	23	16	22	37	1.94
63749732--63749790	28	2.1	28	87	9	86	40	44	3	11	1.58
63751205--63751250	16	2.7	18	80	16	62	47	6	6	39	1.55
63756956--63757904	133	7.2	133	86	1	1172	29	18	23	28	1.98
63757739--63757836	44	2.2	44	83	0	115	28	20	23	27	1.99
63757706--63757879	44	4.0	44	68	10	106	29	19	22	28	1.98
63758489--63758548	29	2.1	28	84	6	77	38	43	5	13	1.66
63759197--63759229	15	2.2	15	100	0	66	45	0	12	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63761124--63761203	35	2.3	34	81	8	99	47	0	3	48	1.19
63761220--63761437	111	2.0	110	94	4	388	44	4	10	39	1.59
63761734--63761774	12	3.5	12	81	15	50	73	7	19	0	1.07
63764388--63764495	21	5.1	21	63	8	58	42	18	23	15	1.88
63764373--63764500	42	3.1	41	84	4	168	42	17	25	14	1.88
63766506--63766672	33	4.7	33	75	14	145	34	26	18	20	1.96
63766507--63766777	76	3.8	75	74	16	279	33	27	18	21	1.96
63774029--63774237	33	5.7	34	71	20	147	31	26	19	22	1.98
63774030--63774241	76	2.8	76	92	2	347	30	26	19	23	1.98
63774141--63774380	102	2.4	102	89	0	363	31	26	19	22	1.98
63785949--63786006	28	2.1	28	80	6	64	37	5	6	50	1.52
63789766--63789812	21	2.2	22	92	3	78	21	19	38	21	1.94
63791957--63792071	42	2.7	42	86	2	151	13	25	18	42	1.87
63791958--63792069	21	5.3	21	66	8	66	13	25	18	42	1.87
63797753--63797790	2	19.0	2	100	0	76	50	0	0	50	1.00
63798052--63798085	13	2.5	14	85	4	52	26	2	0	70	1.01
63801103--63801137	14	2.5	14	85	0	52	28	2	0	68	1.04
63808116--63808144	5	5.8	5	100	0	58	37	0	0	62	0.96
63811619--63811660	20	2.0	20	86	9	57	38	2	4	54	1.34
63819735--63819760	13	2.0	13	100	0	52	38	7	0	53	1.30
63820166--63820231	32	2.1	32	94	0	114	34	31	6	27	1.81
63820437--63820473	14	2.5	15	80	20	51	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63820434--63820498	22	3.0	22	79	6	78	53	1	0	44	1.09
63834275--63834303	15	1.9	15	100	0	58	37	6	13	41	1.72
63837577--63837644	27	2.5	27	92	0	109	27	26	26	19	1.99
63837677--63837747	32	2.2	32	84	0	88	59	0	40	0	0.98
63837711--63837787	24	3.5	24	72	20	85	64	0	33	1	1.01
63837734--63837769	14	2.6	14	86	0	54	72	0	25	2	0.98
63837693--63837807	32	3.4	32	72	17	83	65	0	33	1	1.03
63837699--63837868	42	4.3	41	77	16	155	65	0	32	1	1.00
63837776--63837836	22	2.7	23	79	5	70	70	0	27	1	0.97
63837792--63837859	25	2.8	24	73	10	66	63	0	36	0	0.95

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   205   206   207   208