genome.fa.s10.2.7.7.80.10.50.1000.40.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  40  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)
11791772--11791830	11	5.5	10	83	15	73	47	0	30	22	1.51
11796291--11796321	15	2.1	14	94	5	53	19	9	0	70	1.14
11801031--11801081	25	2.0	26	81	11	61	56	5	5	31	1.47
11803307--11803507	49	4.1	49	94	0	330	30	6	11	50	1.66
11804966--11804995	15	1.9	16	93	6	53	43	0	6	50	1.28
11804987--11805021	18	2.0	17	88	5	52	45	0	0	54	0.99
11805353--11805440	46	2.0	44	84	8	115	37	25	5	31	1.79
11818456--11818491	16	2.2	16	90	9	56	38	0	0	61	0.96
11826049--11826089	20	2.0	20	85	0	55	39	7	2	51	1.43
11829243--11829281	2	19.5	2	100	0	78	51	0	0	48	1.00
11851330--11851378	20	2.7	18	77	22	57	51	2	2	44	1.24
11874661--11874703	17	2.4	18	88	11	63	74	2	0	23	0.93
11881253--11881323	33	2.2	33	89	0	106	25	28	14	32	1.94
11881345--11881417	16	4.6	16	70	21	55	27	10	43	17	1.83
11881346--11881417	32	2.2	32	87	4	101	27	11	43	18	1.83
11882500--11882557	30	1.9	30	82	0	71	13	24	32	29	1.94
11884336--11884426	26	3.4	25	76	23	87	80	4	1	14	0.93
11884336--11884419	6	13.7	6	82	7	89	79	4	1	14	0.95
11884639--11884751	4	27.8	4	67	25	51	70	0	3	25	1.03
11884632--11884734	25	4.0	27	77	15	76	69	0	6	23	1.11
11884632--11884691	27	2.1	29	84	9	79	66	0	10	23	1.21
11884643--11884765	8	14.8	8	80	9	113	70	0	4	25	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11884706--11884774	16	4.3	16	73	23	56	69	0	2	27	1.02
11890189--11890251	21	3.2	20	74	24	55	39	22	1	36	1.64
11891847--11891998	50	3.0	50	85	4	200	28	26	17	26	1.98
11893927--11893953	14	1.9	14	100	0	54	14	14	33	37	1.88
11896129--11896207	23	3.4	23	78	0	86	34	13	26	25	1.94
11896270--11896323	23	2.4	22	81	9	63	31	14	22	31	1.94
11899334--11899519	27	6.9	27	79	6	169	25	20	19	33	1.96
11899347--11899493	55	2.7	54	86	2	195	25	22	17	35	1.95
11899341--11899519	82	2.2	81	84	3	234	26	20	17	35	1.95
11899324--11899519	54	3.6	54	78	6	198	25	21	18	34	1.96
11907841--11907974	19	6.8	19	91	3	205	38	10	14	36	1.81
11907841--11907997	61	2.6	58	85	9	208	37	9	14	38	1.79
11909116--11909157	19	2.2	20	86	4	59	33	7	9	50	1.62
11909398--11909592	98	2.0	98	92	0	327	29	9	23	37	1.86
11915602--11915707	43	2.4	44	80	9	110	27	16	26	29	1.97
11915913--11916044	19	6.8	19	91	3	219	37	10	15	36	1.82
11915913--11916051	59	2.4	57	89	6	219	38	10	15	36	1.81
11917190--11917384	98	2.0	98	92	0	327	29	10	23	36	1.88
11921209--11921356	42	3.4	43	71	16	128	26	18	26	28	1.98
11921539--11921575	18	2.0	19	85	15	51	43	5	18	32	1.73
11926509--11926541	13	2.4	14	90	10	50	42	3	0	54	1.15
11927070--11927098	3	9.7	3	100	0	58	68	0	31	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11927554--11927610	29	1.9	30	85	3	80	40	3	3	52	1.35
11928309--11928360	24	2.2	24	82	0	59	50	9	5	34	1.59
11929534--11929568	6	5.8	6	100	0	70	0	65	0	34	0.93
11936498--11936557	27	2.2	27	96	0	111	36	15	0	48	1.45
11939247--11939301	21	2.6	21	88	0	83	27	34	25	12	1.92
11944404--11944536	57	2.3	57	89	0	194	47	15	9	27	1.76
11954775--11954834	30	2.0	30	83	3	75	41	0	38	20	1.52
11956087--11956150	25	2.6	24	80	2	83	35	21	26	15	1.94
11956087--11956157	24	2.9	24	74	17	74	35	23	25	15	1.94
11969713--11969738	13	2.0	13	100	0	52	46	0	0	53	1.00
11970459--11970526	34	2.0	34	100	0	136	26	0	23	50	1.50
11970461--11970519	14	3.5	17	69	26	54	25	0	23	50	1.49
11972726--11972758	15	2.1	17	88	11	52	72	3	0	24	0.98
11974321--11974607	156	1.8	156	79	1	333	31	16	21	31	1.95
11975541--11975575	17	2.1	17	89	10	54	37	5	28	28	1.80
11980133--11980270	39	3.5	39	88	0	168	43	19	5	31	1.73
11991892--11991978	33	2.7	33	83	1	113	40	4	36	18	1.71
11998082--11998122	21	1.9	22	85	5	57	24	14	17	43	1.86
12000480--12000608	50	2.6	50	82	0	159	27	24	27	20	1.99
12014813--12015069	69	3.7	69	76	4	225	32	28	14	24	1.95
12015033--12015242	67	3.1	66	80	4	242	34	30	14	19	1.92
12045063--12045147	43	2.0	43	88	4	127	23	24	1	50	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12046372--12046404	15	2.2	15	94	0	57	42	6	0	51	1.26
12053326--12053382	17	3.5	17	69	13	57	47	24	3	24	1.68
12053323--12053387	31	2.1	31	100	0	130	47	27	3	21	1.65
12059691--12059735	22	2.0	22	100	0	90	46	17	22	13	1.83
12068563--12068631	32	2.1	32	81	2	75	33	1	30	34	1.67
12068671--12068734	32	2.0	32	96	0	119	31	1	31	35	1.67
12069172--12069221	14	3.8	13	82	10	57	30	2	10	58	1.42
12069172--12069221	12	3.9	12	79	20	57	30	2	10	58	1.42
12069172--12069230	26	2.2	28	85	8	79	30	3	8	57	1.45
12071662--12071737	34	2.3	34	93	2	127	40	7	17	34	1.78
12071691--12071792	45	2.3	45	96	0	186	38	11	18	31	1.87
12086066--12086172	44	2.5	42	79	7	117	26	15	24	33	1.95
12087099--12087377	81	3.5	80	81	5	323	41	18	21	18	1.90
12087099--12087378	27	10.4	27	83	5	289	41	18	21	18	1.91
12087551--12087625	26	2.9	26	93	0	123	17	24	21	37	1.94
12090845--12090892	21	2.3	21	78	7	53	25	0	16	58	1.38
12092120--12092186	35	1.9	35	90	0	107	47	8	4	38	1.55
12092203--12092235	13	2.6	13	90	4	50	45	6	9	39	1.61
12094655--12094810	84	1.9	84	84	10	212	30	29	17	23	1.97
12094655--12094811	43	3.7	43	76	13	173	29	29	17	22	1.97
12102298--12102452	43	3.7	42	77	10	156	29	27	18	24	1.98
12103723--12103838	13	8.8	13	81	4	126	53	6	5	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12103723--12103833	27	4.2	26	79	4	125	52	7	5	35	1.52
12103721--12103833	53	2.2	52	90	1	172	52	7	5	35	1.52
12103739--12103838	25	3.9	25	77	6	83	55	7	4	34	1.46
12106200--12106543	139	2.5	139	83	4	435	35	17	20	27	1.95
12109421--12109459	20	2.0	20	89	0	60	46	17	28	7	1.76
12117930--12117972	15	2.9	14	80	13	50	69	9	2	18	1.26
12123379--12123408	12	2.5	12	94	0	51	6	30	43	20	1.77
12130167--12130403	40	5.9	40	86	2	332	18	28	17	35	1.94
12137978--12138046	6	11.5	6	100	0	138	33	0	15	50	1.45
12141002--12141034	3	11.0	3	100	0	66	33	0	33	33	1.58
12143014--12143053	18	2.2	18	86	8	55	55	0	0	45	0.99
12150984--12151044	22	2.8	22	89	0	95	14	16	19	49	1.80
12151043--12151099	20	2.8	20	89	0	78	8	24	22	43	1.81
12157820--12157891	27	2.7	26	79	12	92	44	18	15	22	1.86
12158114--12158194	26	3.1	26	76	3	83	20	20	23	34	1.97
12158196--12158326	58	2.3	58	94	0	226	11	12	40	35	1.79
12158354--12158555	28	7.2	28	91	2	318	22	23	25	29	1.99
12159298--12159344	22	2.1	22	84	7	60	68	0	2	29	1.02
12173435--12173465	6	5.2	6	100	0	62	0	0	16	83	0.64
12175664--12175698	17	2.1	16	89	5	52	20	14	14	51	1.76
12178902--12179030	49	2.6	48	80	4	132	26	17	27	28	1.97
12179276--12179372	48	2.0	48	82	4	115	37	4	18	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12179608--12179664	26	2.2	26	87	0	78	43	14	19	22	1.86
12188274--12188346	19	3.8	19	98	0	137	35	10	17	35	1.85
12188274--12188369	19	4.7	22	90	5	93	35	9	17	37	1.82
12188890--12188967	38	2.1	38	83	11	99	38	7	1	52	1.38
12189285--12189332	3	16.0	3	100	0	96	33	0	0	66	0.92
12190321--12190398	3	26.0	3	100	0	156	33	0	0	66	0.92
12191737--12191839	31	3.4	31	72	8	84	51	9	0	37	1.42
12191729--12191850	61	2.0	61	83	0	154	50	10	1	37	1.47
12195286--12195418	43	3.1	43	78	6	137	32	26	13	27	1.94
12202872--12202978	43	2.5	42	74	4	106	31	23	14	29	1.95

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