genome.fa.s8.2.7.7.80.10.50.1000.138.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  138  of  190  ( 22705 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)
40705021--40705119	31	3.2	29	75	19	94	44	2	1	52	1.19
40705073--40705136	29	2.3	28	84	12	80	43	0	0	56	0.99
40705071--40705174	53	2.0	51	82	14	124	44	1	0	53	1.11
40705153--40705199	16	2.9	16	84	12	60	55	0	0	44	0.99
40705232--40705288	15	3.5	15	71	17	51	50	3	0	45	1.18
40705741--40705784	2	22.0	2	100	0	88	50	0	0	50	1.00
40706742--40706766	6	4.2	6	100	0	50	0	20	16	64	1.30
40709086--40709168	33	2.5	33	75	7	78	28	21	15	33	1.94
40714345--40714388	20	2.1	21	87	8	63	13	9	13	63	1.51
40727657--40727689	5	6.4	5	93	6	57	78	18	0	3	0.87
40728772--40728824	11	4.6	12	73	17	58	26	30	0	43	1.55
40728780--40728823	11	3.8	12	85	8	65	25	29	0	45	1.54
40731399--40731474	15	5.1	15	77	7	66	57	28	0	13	1.36
40731399--40731480	7	11.4	7	75	13	69	58	28	0	13	1.36
40731336--40731861	44	12.2	44	76	10	401	49	28	0	20	1.54
40731743--40731882	29	4.8	29	73	13	92	50	28	0	20	1.54
40731786--40731875	15	6.2	14	72	16	51	51	26	1	21	1.55
40731830--40731882	15	3.6	15	79	5	63	50	28	0	20	1.48
40731757--40731868	7	15.3	7	71	15	66	50	28	0	19	1.53
40731333--40731861	22	24.6	22	75	10	303	49	29	0	20	1.54
40731824--40731889	29	2.3	29	86	2	98	46	31	0	21	1.51
40735034--40735298	125	2.1	125	88	1	397	30	22	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40737097--40737146	2	25.0	2	100	0	100	50	0	0	50	1.00
40739954--40739996	12	4.1	11	80	20	56	72	0	0	27	0.85
40740221--40740271	20	2.6	20	82	11	61	25	1	0	72	0.95
40740321--40740361	21	2.0	21	85	9	57	41	4	0	53	1.22
40741275--40741422	79	1.9	79	87	2	217	33	8	14	43	1.75
40750681--40750722	16	2.6	16	88	11	59	54	2	0	42	1.13
40750707--40751149	214	2.1	213	88	5	671	44	6	7	41	1.59
40757016--40757051	17	2.1	17	100	0	72	22	25	11	41	1.86
40760383--40760416	17	2.0	17	100	0	68	58	11	0	29	1.33
40763388--40763424	13	2.8	14	80	16	51	45	0	0	54	1.00
40763542--40763626	31	2.8	30	81	15	104	32	14	4	48	1.64
40765430--40765489	26	2.3	26	91	0	93	20	23	20	36	1.95
40768444--40768504	18	3.3	18	73	17	54	73	0	3	22	0.97
40768723--40768776	25	2.2	24	80	9	65	27	0	1	70	0.98
40786007--40786052	21	2.1	21	88	8	65	34	4	2	58	1.30
40792922--40793092	72	2.4	71	85	2	216	26	21	24	27	1.99
40793106--40793281	73	2.4	72	88	1	253	26	19	28	25	1.98
40792922--40793392	186	2.5	185	84	5	594	26	21	26	26	1.99
40793179--40793506	113	2.9	111	85	2	442	26	21	26	25	1.99
40793406--40793577	71	2.4	71	90	3	256	28	20	25	25	1.99
40793292--40793764	185	2.5	186	88	1	680	27	21	26	25	1.99
40793477--40793691	114	1.9	114	91	0	349	26	21	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40792993--40793691	299	2.3	299	92	1	1161	26	20	26	25	1.99
40793591--40793830	73	3.4	69	83	8	290	28	20	27	23	1.99
40794014--40794053	14	2.9	14	84	0	53	17	0	32	50	1.47
40795772--40795813	20	2.1	20	90	0	66	40	9	16	33	1.81
40795822--40795852	15	2.1	15	100	0	62	22	12	25	38	1.90
40800484--40800526	20	2.2	20	91	0	68	41	11	16	30	1.83
40800526--40800556	15	2.1	15	100	0	62	22	12	25	38	1.90
40802660--40802725	23	2.9	23	82	13	82	33	7	22	36	1.83
40804805--40804856	22	2.3	23	90	9	81	26	3	0	69	1.06
40804817--40804877	17	3.8	17	76	12	65	24	4	0	70	1.07
40804827--40804870	14	2.9	14	80	12	52	25	2	0	72	0.96
40807886--40808028	73	2.0	72	92	1	241	30	20	15	34	1.93
40814699--40814775	40	1.9	40	97	0	145	25	14	22	37	1.92
40819871--40820435	44	12.6	44	69	10	263	30	18	22	29	1.97
40820238--40820500	129	2.0	129	91	2	431	28	16	22	31	1.96
40820282--40820555	129	2.1	129	81	4	311	31	17	22	29	1.96
40822236--40822314	2	40.5	2	71	9	56	43	5	1	50	1.32
40822697--40822840	73	2.0	73	97	0	270	27	19	18	34	1.95
40823865--40823908	22	2.2	19	84	12	52	9	20	13	56	1.64
40825620--40825787	40	4.2	40	84	7	161	33	20	23	22	1.97
40825637--40825787	40	3.8	40	88	2	207	35	20	22	21	1.96
40825678--40825812	40	3.4	39	88	5	121	37	20	22	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40825853--40826021	41	4.1	41	89	0	239	16	20	31	31	1.95
40827545--40827947	109	3.7	109	93	0	664	34	20	15	30	1.93
40828595--40828700	21	5.4	19	83	8	99	63	2	2	31	1.23
40828595--40828686	3	30.7	3	83	8	116	64	2	2	31	1.18
40829053--40829088	12	3.0	12	91	0	54	38	0	11	50	1.38
40834426--40834637	114	1.8	115	89	2	336	25	10	21	41	1.85
40834948--40835036	25	3.5	26	83	7	105	57	5	3	33	1.39
40834962--40835041	26	3.2	25	84	7	101	58	5	3	32	1.37
40835065--40835115	17	3.2	16	73	15	52	72	7	3	15	1.23
40835817--40835869	26	2.0	26	96	0	97	22	18	5	52	1.66
40836337--40836435	44	2.2	44	78	3	101	26	24	17	32	1.97
40836445--40836674	44	5.4	43	71	8	166	25	21	22	30	1.99
40836432--40836686	128	2.0	129	89	2	397	25	20	21	32	1.98
40836704--40837199	50	10.0	50	72	2	172	26	22	21	30	1.99
40836719--40837208	99	4.9	100	88	1	689	25	23	21	29	1.99
40843905--40843929	4	6.2	4	100	0	50	76	0	0	24	0.80
40843995--40844085	26	3.4	25	81	13	103	57	6	3	32	1.41
40844012--40844091	25	3.2	24	76	20	83	60	5	3	31	1.36
40848170--40848212	21	2.0	21	100	0	86	30	13	18	37	1.90
40848736--40848795	30	2.0	30	100	0	120	23	30	6	40	1.80
40849572--40849656	3	28.3	3	95	0	152	1	31	0	67	0.99
40850777--40850817	20	2.0	20	90	0	64	46	19	4	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40852091--40852145	25	2.2	26	83	3	67	34	3	1	60	1.25
40861567--40861606	16	2.5	16	87	0	53	42	5	2	50	1.37
40861580--40861641	22	2.7	23	85	5	81	46	0	1	51	1.10
40862819--40862844	5	5.2	5	100	0	52	19	0	0	80	0.71
40863390--40863547	69	2.3	71	77	11	166	34	2	12	50	1.53
40865064--40865093	15	2.0	15	93	0	51	66	10	0	23	1.21
40865060--40865100	19	2.2	19	90	0	64	65	9	0	24	1.22
40867508--40867537	15	2.0	15	93	0	51	66	10	0	23	1.21
40867504--40867544	19	2.2	19	90	0	64	65	9	0	24	1.22
40868367--40868419	20	2.7	19	75	18	54	77	3	9	9	1.11
40871999--40872050	17	3.0	17	91	5	86	46	11	13	28	1.78
40872446--40872492	8	5.5	8	81	18	51	0	17	0	82	0.66
40872798--40872876	7	11.0	7	82	15	90	0	18	0	81	0.70
40872780--40872901	37	3.3	37	77	16	112	0	22	0	77	0.83
40872789--40872882	44	2.1	46	88	7	140	0	20	0	79	0.73
40872790--40872903	19	6.0	18	70	24	74	0	23	0	76	0.79
40873424--40873493	29	2.4	29	85	2	95	44	1	18	35	1.59
40873853--40874663	75	10.7	76	85	3	1007	32	20	18	28	1.96
40873853--40874663	151	5.4	149	85	4	1016	32	20	18	28	1.96
40886803--40886845	20	2.1	21	91	8	72	0	23	0	76	0.78
40887144--40887208	11	5.7	11	77	18	62	0	21	0	78	0.75
40887145--40887211	23	3.0	22	89	6	100	0	22	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40887742--40887816	29	2.6	29	80	6	89	38	8	22	30	1.83
40891341--40891407	3	22.3	3	93	0	62	26	38	5	28	1.80
40905013--40905176	21	7.9	21	68	10	68	18	19	18	43	1.89
40905047--40905165	42	2.8	42	80	2	132	15	20	20	43	1.88
40912954--40913047	44	2.2	43	90	5	145	31	21	8	38	1.83
40915986--40916015	9	3.3	9	95	0	51	6	0	3	90	0.56
40924318--40924384	24	2.7	26	79	13	77	52	7	0	40	1.30
40925847--40925944	28	3.5	28	85	0	133	30	13	26	29	1.94
40926114--40926145	2	16.5	2	93	6	57	46	0	0	53	1.00
40926768--40927387	23	26.6	23	71	11	390	26	14	16	42	1.87

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