genome.fa.s10.2.7.7.80.10.50.1000.15.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  15  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)
4699796--4700361	143	4.0	143	88	0	794	28	19	23	28	1.98
4700294--4700430	45	3.1	45	70	6	125	29	23	22	24	1.99
4700107--4700531	232	1.8	232	85	1	591	30	20	21	28	1.98
4700250--4700430	89	2.0	89	90	0	281	28	23	22	25	2.00
4701895--4701933	12	2.9	14	88	11	55	25	5	0	69	1.09
4701896--4701958	15	3.9	15	76	17	56	25	4	0	69	1.07
4701895--4701956	25	2.4	27	82	12	69	25	4	0	69	1.08
4703745--4703787	21	2.0	21	86	9	59	11	9	18	60	1.57
4704687--4704740	16	3.4	16	75	10	56	20	31	1	46	1.61
4709044--4709093	15	3.3	15	83	8	57	38	44	10	8	1.68
4712920--4712951	6	5.3	6	92	0	55	12	0	87	0	0.54
4733500--4733547	21	2.3	21	85	0	60	31	29	25	14	1.95
4736477--4736516	19	2.1	19	86	9	55	42	7	0	50	1.30
4745997--4746200	104	2.0	100	96	3	372	37	25	12	24	1.90
4750756--4750852	50	1.9	50	89	0	149	30	19	19	29	1.97
4772922--4773105	44	4.2	44	66	13	117	30	21	22	25	1.99
4772868--4773532	132	5.1	132	88	2	918	31	19	24	24	1.98
4772868--4773766	264	3.5	262	84	7	1140	32	19	24	24	1.98
4773444--4773642	110	1.8	110	91	0	326	34	20	22	23	1.97
4773313--4773766	242	1.9	234	89	3	701	34	18	23	24	1.96
4773547--4773784	132	1.8	132	87	0	361	33	19	21	25	1.97
4773853--4774109	44	5.9	43	71	13	179	29	20	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4773944--4774196	128	2.0	128	85	3	339	29	21	22	26	1.99
4774679--4774707	3	10.0	3	92	7	51	31	0	0	68	0.89
4775622--4775721	45	2.2	44	79	13	107	27	5	4	64	1.32
4786780--4786838	29	2.0	29	83	3	73	13	27	40	18	1.88
4790337--4790462	60	2.0	61	90	7	200	34	8	19	38	1.82
4790340--4790461	65	2.0	57	90	8	163	34	8	19	37	1.82
4794463--4794780	125	2.5	125	93	0	555	31	18	21	28	1.97
4797824--4797917	35	2.7	35	91	1	152	39	0	9	51	1.35
4797824--4797912	16	5.0	19	65	20	66	39	0	10	50	1.36
4797954--4798054	22	4.7	21	83	7	98	22	1	29	45	1.64
4798034--4798066	12	2.8	12	95	0	57	12	0	30	57	1.35
4798073--4798110	7	5.6	7	84	15	53	55	0	0	44	0.99
4798124--4798189	21	3.1	21	95	4	116	24	0	34	40	1.55
4798046--4798577	126	4.2	126	75	17	565	34	1	18	45	1.57
4798199--4798238	7	5.9	7	83	16	57	52	0	0	47	1.00
4798251--4798330	22	4.0	21	76	17	98	23	2	31	42	1.67
4798267--4798303	16	2.3	16	90	0	56	24	2	29	43	1.68
4798253--4798325	37	1.9	38	94	2	130	23	2	30	43	1.67
4798357--4798389	8	4.2	8	96	3	59	45	0	0	54	0.99
4798357--4798394	16	2.5	15	87	8	58	44	0	0	55	0.99
4798290--4798555	112	2.4	104	83	14	352	35	1	16	46	1.55
4798461--4798500	7	5.9	7	83	16	57	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4798318--4798544	112	2.0	116	89	7	356	37	0	14	47	1.50
4798513--4798588	22	3.5	21	94	1	125	22	1	32	43	1.62
4798499--4798588	43	2.1	44	83	10	114	25	1	27	45	1.61
4797990--4799115	133	8.1	134	78	15	1063	34	1	18	45	1.59
4798403--4799115	155	4.8	155	83	12	973	34	1	19	45	1.60
4798616--4798655	7	5.9	7	83	16	57	52	0	0	47	1.00
4798654--4798749	43	2.2	44	83	9	117	27	1	26	45	1.60
4798670--4798754	22	3.9	22	93	1	136	25	1	29	43	1.62
4798764--4798803	7	5.9	7	83	16	57	52	0	0	47	1.00
4798809--4798869	21	3.0	21	88	7	72	21	3	31	44	1.68
4798816--4798869	21	2.5	21	93	3	90	18	1	35	44	1.61
4798534--4799115	282	2.1	278	91	5	940	33	1	19	45	1.61
4798935--4798985	21	2.4	21	87	9	68	29	0	23	47	1.52
4798948--4799018	21	3.6	21	76	20	80	22	2	32	42	1.68
4798968--4799001	16	2.2	16	94	5	61	23	2	32	41	1.69
4798832--4799115	149	1.9	149	97	0	541	33	1	20	44	1.62
4798988--4799252	111	2.4	108	87	7	392	35	1	17	45	1.58
4799157--4799196	7	5.9	7	83	16	57	52	0	0	47	1.00
4799211--4799263	22	2.4	22	93	0	88	22	1	30	45	1.63
4801203--4801234	4	8.0	4	100	0	64	25	0	0	75	0.81
4801690--4801734	21	2.1	22	91	4	74	24	2	28	44	1.66
4801760--4801811	26	2.0	26	85	7	70	48	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4801814--4801865	21	2.4	22	93	3	88	21	1	30	46	1.62
4801690--4801996	131	2.3	131	95	1	544	31	2	19	46	1.63
4801891--4801942	26	2.0	26	88	7	79	50	1	0	48	1.12
4801945--4801997	21	2.5	22	93	3	90	20	1	30	47	1.61
4802468--4802509	18	2.3	18	87	0	57	47	4	28	19	1.69
4804342--4804406	11	6.1	10	77	19	53	47	3	27	21	1.65
4804342--4804416	22	3.4	22	77	14	57	48	2	28	21	1.64
4818684--4818724	18	2.3	18	86	0	55	39	24	21	14	1.91
4818712--4818754	17	2.4	18	88	11	63	37	34	13	13	1.85
4819624--4819656	13	2.6	13	95	4	59	57	0	9	33	1.30
4819767--4819820	22	2.5	22	81	0	63	62	14	9	12	1.53
4820644--4820675	16	1.9	17	93	6	57	3	9	0	87	0.64
4821405--4821442	20	1.9	20	88	0	58	34	2	10	52	1.50
4822542--4822588	25	2.0	23	87	8	67	42	23	8	25	1.82
4829641--4829672	2	16.0	2	100	0	64	50	0	0	50	1.00
4830318--4830453	63	2.2	64	78	6	152	25	28	25	21	1.99
4832749--4832822	3	24.7	3	100	0	148	32	0	0	67	0.91
4841153--4841194	22	1.9	23	85	9	61	30	14	0	54	1.40
4842486--4842519	3	11.3	3	100	0	68	67	0	0	32	0.91
4848355--4848939	306	1.9	296	81	5	699	35	12	11	41	1.78
4853516--4853559	7	6.3	7	100	0	88	0	15	43	40	1.47
4854379--4854427	9	5.4	9	92	0	80	40	22	10	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4854459--4854502	12	3.4	13	84	9	54	25	0	9	65	1.21
4854459--4854502	20	2.2	20	84	11	56	25	0	9	65	1.21
4855273--4855306	16	2.1	16	88	0	50	61	8	0	29	1.26
4857617--4857660	21	2.1	21	100	0	88	36	25	4	34	1.76
4860587--4860673	44	2.0	44	88	2	131	34	27	18	19	1.95
4867086--4867119	17	2.1	17	88	5	52	52	20	8	17	1.71
4868191--4868236	17	2.8	17	80	12	60	47	2	0	50	1.13
4868555--4868624	27	2.6	27	95	4	124	41	12	0	45	1.42
4868689--4868791	27	3.8	27	85	2	127	24	26	29	20	1.99
4868995--4869032	3	12.3	3	88	5	58	34	0	2	63	1.09
4869031--4869110	3	26.7	3	100	0	160	0	0	32	67	0.91
4875139--4875259	18	6.4	18	71	21	79	0	31	0	68	0.90
4875125--4875278	44	3.6	44	79	12	135	0	33	0	66	0.92
4875170--4875291	4	29.2	4	72	21	83	0	31	0	68	0.96
4875136--4875281	79	1.8	79	87	8	217	0	32	0	67	0.91
4875140--4875263	35	3.5	36	81	13	134	0	32	0	67	0.91
4875143--4875280	40	3.4	41	80	17	153	0	32	0	67	0.91
4875446--4875519	28	2.7	28	93	6	125	44	0	12	43	1.41
4883391--4883541	76	2.0	76	89	0	230	22	33	13	29	1.93
4887826--4887916	45	2.0	44	85	2	119	32	5	27	34	1.80
4888314--4888457	45	3.1	45	65	23	102	48	3	2	45	1.34
4888273--4888489	91	2.4	89	84	6	290	46	4	3	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888322--4888468	44	3.3	42	67	20	109	47	4	2	46	1.33
4888332--4888470	47	3.0	47	68	16	128	49	3	2	44	1.31
4891673--4891758	36	2.4	37	88	2	120	53	11	27	6	1.63
4894476--4894533	28	2.1	28	93	6	100	48	6	17	27	1.72
4896163--4896189	2	13.5	2	100	0	54	48	0	0	51	1.00
4899807--4899840	17	1.9	17	88	5	50	55	2	5	35	1.39
4900087--4900127	14	3.1	14	75	13	50	60	14	0	24	1.34
4905037--4905260	94	2.3	95	79	9	242	33	21	19	25	1.97
4905661--4905820	50	3.3	48	75	7	126	30	24	18	27	1.98
4905728--4905828	49	2.1	48	81	3	114	34	23	17	23	1.96

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