genome.fa.s4.2.7.7.80.10.50.1000.164.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  164  of  198  ( 23681 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)
51605771--51605830	19	3.1	20	85	4	70	61	6	3	28	1.37
51608458--51608496	20	2.1	19	85	9	53	53	5	2	38	1.37
51616267--51616315	25	2.0	25	87	0	71	30	2	4	63	1.24
51618161--51618194	10	3.3	10	88	8	50	64	0	0	35	0.94
51618166--51618191	11	2.4	11	100	0	52	76	0	0	23	0.78
51618210--51618261	26	2.0	26	85	7	70	59	0	0	40	0.97
51618245--51618366	10	12.5	10	67	17	62	61	0	4	33	1.21
51618277--51618375	19	5.0	19	78	10	83	59	1	5	34	1.26
51618294--51618375	29	2.9	28	75	10	85	60	0	4	34	1.18
51618291--51618375	10	8.7	10	72	10	68	60	0	4	35	1.18
51618295--51618412	58	2.0	58	83	6	150	60	1	7	30	1.35
51618641--51618692	19	2.8	18	80	8	59	34	3	1	59	1.27
51618732--51618925	87	2.3	86	83	5	250	33	9	18	39	1.82
51620399--51620439	21	2.0	21	85	9	57	36	4	2	56	1.34
51621773--51621815	18	2.4	18	80	7	52	46	2	0	51	1.13
51622427--51622458	16	2.0	16	100	0	64	18	6	6	68	1.32
51630047--51630101	15	3.7	15	73	26	55	47	16	0	36	1.47
51631535--51631647	25	4.6	25	68	18	76	32	23	25	18	1.97
51632145--51632184	21	1.9	21	89	0	62	40	25	0	35	1.56
51633289--51633422	47	2.9	47	78	6	146	26	23	13	37	1.91
51638275--51638327	3	17.7	3	100	0	106	67	32	0	0	0.91
51638326--51638351	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51641534--51641869	132	2.5	132	88	3	498	28	22	19	30	1.98
51646587--51646622	17	2.1	17	89	0	54	44	22	16	16	1.86
51649628--51649681	3	18.0	3	100	0	108	66	33	0	0	0.92
51649680--51649705	3	8.7	3	100	0	52	69	0	0	30	0.89
51657701--51657740	18	2.2	19	86	4	55	12	25	25	37	1.91
51662967--51663018	16	3.2	16	94	0	95	26	0	34	38	1.57
51663004--51663112	44	2.6	40	74	17	112	31	6	27	34	1.82
51663269--51663469	61	3.3	60	72	10	203	46	5	3	43	1.46
51663330--51663499	44	4.2	42	63	19	108	48	4	2	43	1.38
51663237--51663548	120	2.6	120	92	2	511	47	5	2	44	1.39
51670252--51670279	11	2.5	11	100	0	56	42	10	39	7	1.67
51682049--51682091	19	2.3	18	88	4	59	20	34	2	41	1.65
51694707--51694768	21	3.0	21	76	21	60	30	1	6	61	1.31
51700298--51700342	23	2.0	23	81	0	54	22	0	15	62	1.33
51700598--51700640	23	1.9	22	85	4	59	32	0	9	58	1.30
51702018--51702284	146	1.8	146	84	3	367	43	8	8	39	1.67
51702905--51703002	48	2.0	48	100	0	196	6	32	16	44	1.72
51704653--51704806	73	2.1	73	100	0	308	18	27	6	47	1.73
51704989--51705033	11	3.9	11	80	11	54	57	4	0	37	1.19
51707611--51707676	23	2.8	23	81	9	62	22	27	0	50	1.50
51709765--51709809	11	3.9	11	80	11	54	57	2	0	40	1.11
51710730--51710815	43	2.0	43	86	4	120	50	2	26	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51714009--51714060	24	2.2	24	86	3	70	23	1	7	67	1.27
51714793--51714822	13	2.3	13	94	0	51	23	10	0	66	1.21
51715852--51715936	34	2.5	33	80	3	89	30	14	15	40	1.86
51717893--51717943	25	2.0	26	84	3	68	58	3	1	35	1.28
51721719--51721756	20	1.9	20	88	0	58	78	0	0	21	0.74
51726550--51726627	40	2.0	40	82	5	95	32	20	0	47	1.51
51727036--51727096	22	2.8	22	82	2	79	21	9	14	54	1.69
51730903--51730967	32	2.0	32	96	0	121	12	20	21	46	1.83
51737002--51737061	24	2.4	26	80	5	79	48	0	0	51	1.00
51737012--51737069	24	2.5	24	72	13	57	48	0	0	51	1.00
51737034--51737066	17	2.0	17	94	5	59	48	0	0	51	1.00
51737414--51737446	14	2.4	14	90	10	50	57	3	6	33	1.38
51741318--51741351	16	2.1	17	94	5	61	38	5	11	44	1.65
51750768--51750810	12	3.6	12	87	0	50	32	9	20	37	1.85
51752186--51752222	6	6.2	6	100	0	74	83	0	0	16	0.64
51773829--51773915	23	4.0	22	88	7	124	37	21	19	20	1.94
51774879--51774941	4	16.8	4	77	14	55	0	19	3	77	0.90
51774871--51774942	14	5.3	14	83	9	78	0	19	2	77	0.88
51774876--51774941	18	3.8	18	78	17	77	0	19	3	77	0.90
51774879--51774942	14	4.6	13	86	9	83	0	18	3	78	0.89
51783387--51783510	23	5.4	23	69	19	73	32	5	8	53	1.55
51785019--51785081	25	2.5	25	97	0	117	14	25	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51785149--51785246	25	3.8	25	77	9	108	17	27	22	32	1.96
51785266--51785336	25	2.8	26	74	8	65	21	28	21	29	1.98
51790389--51790442	29	2.0	25	82	13	63	50	3	0	46	1.19
51791420--51791472	15	3.6	15	73	14	56	56	11	7	24	1.60
51791414--51791476	29	2.2	29	100	0	126	55	9	6	28	1.56
51793767--51793803	9	4.1	9	92	0	65	45	13	10	29	1.77
51794022--51794081	30	2.0	31	86	3	86	20	40	0	40	1.52
51795365--51795425	31	2.0	31	100	0	122	40	13	19	26	1.88
51801424--51801489	28	2.4	28	76	5	71	25	15	13	45	1.83
51801650--51801706	10	5.2	11	74	21	57	21	35	0	43	1.52
51801667--51801722	22	2.5	22	97	2	103	28	32	0	39	1.57
51802901--51802925	7	3.6	7	100	0	50	28	0	12	60	1.32
51803069--51803642	29	21.1	29	78	16	624	45	26	0	27	1.55
51803367--51803412	22	2.2	20	85	11	58	45	23	0	30	1.53
51803411--51803453	23	2.0	20	95	4	59	48	20	0	30	1.50
51803208--51803571	103	3.3	103	86	10	446	45	26	0	27	1.54
51803470--51803520	22	2.5	22	87	9	72	47	25	0	27	1.53
51803427--51803640	80	2.8	80	92	4	359	46	26	0	27	1.53
51803521--51803642	51	2.4	50	89	8	183	45	26	0	27	1.54
51803594--51803636	23	2.0	20	95	4	59	48	20	0	30	1.50
51803647--51803884	116	2.1	116	93	0	404	38	10	8	42	1.71
51803860--51803901	17	2.4	18	80	4	50	42	9	2	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51806914--51807250	126	2.7	126	86	8	490	33	21	15	29	1.94
51816927--51816957	2	15.5	2	100	0	62	48	0	0	51	1.00
51824438--51824500	30	2.1	30	93	0	108	55	14	3	26	1.54
51826384--51826452	30	2.3	31	85	7	97	39	4	11	44	1.61
51832689--51832740	27	1.9	27	92	0	86	23	23	36	17	1.95
51834556--51834601	24	1.9	24	82	8	58	19	26	30	23	1.98
51845875--51845907	3	11.0	3	100	0	66	33	0	0	66	0.92
51850300--51850338	7	5.6	7	100	0	78	12	0	56	30	1.37
51850292--51850338	21	2.2	21	92	0	76	17	0	53	29	1.44
51850623--51850673	21	2.4	21	96	0	93	19	0	47	33	1.50
51852176--51852222	22	2.1	22	100	0	94	40	4	12	42	1.63
51853470--51853514	18	2.5	18	96	0	81	48	11	0	40	1.39
51853474--51853514	9	4.6	9	81	0	55	46	12	0	41	1.41
51853641--51853745	23	4.3	23	66	23	63	49	18	0	32	1.48
51853629--51853755	40	3.3	40	72	20	144	49	18	0	32	1.47
51853784--51854138	9	39.2	9	77	10	316	45	17	0	36	1.54
51859673--51859747	21	3.4	21	77	10	69	36	18	42	2	1.65
51859705--51859744	12	3.3	12	96	0	71	40	17	40	2	1.63
51861435--51861465	15	2.1	15	93	0	53	38	0	9	51	1.35
51862613--51862797	84	2.2	84	86	3	257	53	2	20	23	1.58
51864032--51864072	20	2.0	21	85	4	57	43	9	2	43	1.50
51872107--51872340	112	2.1	113	83	4	294	32	22	22	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51872132--51872379	112	2.2	112	80	4	268	31	20	23	24	1.98
51872459--51873000	115	4.7	114	73	8	433	32	19	22	25	1.98
51872460--51872995	229	2.3	227	80	5	598	32	19	22	25	1.97
51873913--51873947	14	2.4	15	90	4	54	22	0	34	42	1.54
51877821--51878166	18	19.7	17	77	13	296	48	16	1	33	1.57
51877827--51878166	36	9.7	36	82	8	366	47	16	1	33	1.57
51877827--51878166	27	12.9	27	83	10	366	47	16	1	33	1.57
51886492--51886557	21	3.1	21	86	0	87	36	19	42	1	1.61
51887009--51887212	42	4.8	42	84	5	234	25	24	19	30	1.98
51887009--51887213	85	2.4	85	90	4	308	25	24	19	30	1.98

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