genome.fa.s11.2.7.7.80.10.50.1000.182.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  182  of  210  ( 25152 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)
54031125--54031174	22	2.3	22	89	6	75	42	2	32	24	1.66
54033110--54033136	11	2.5	11	100	0	54	7	22	22	48	1.75
54060648--54060741	21	4.7	21	74	18	60	34	3	2	60	1.24
54060670--54060751	18	4.3	18	70	13	58	34	2	1	62	1.16
54073482--54073544	2	31.5	2	93	6	110	49	1	0	49	1.10
54075675--54075771	49	2.0	50	85	2	133	31	26	15	25	1.96
54087555--54087627	28	2.5	28	79	16	78	72	0	17	9	1.10
54094394--54094457	27	2.2	29	83	8	78	39	9	34	17	1.82
54098293--54098321	2	14.5	2	100	0	58	48	0	0	51	1.00
54100322--54100389	10	7.1	10	72	12	54	63	1	1	33	1.13
54103173--54103216	18	2.5	18	88	3	63	72	6	4	15	1.22
54103303--54103409	2	53.5	2	94	0	187	48	0	1	48	1.18
54103436--54103470	14	2.5	14	85	0	52	40	5	11	42	1.65
54103684--54103790	3	35.3	3	70	15	51	65	1	6	26	1.27
54103682--54103757	15	5.7	13	75	14	57	63	1	6	28	1.28
54105019--54105063	22	2.0	24	86	8	67	46	4	11	37	1.60
54108382--54108437	20	2.8	20	78	2	60	60	1	1	35	1.17
54108497--54108550	9	5.9	9	77	12	56	55	1	1	40	1.21
54108489--54108523	18	1.9	18	88	0	52	60	0	0	40	0.97
54108579--54108627	22	2.3	21	79	10	55	53	4	2	40	1.32
54113680--54113765	36	2.5	34	75	7	91	65	4	4	25	1.32
54113729--54113759	11	2.8	11	100	0	62	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54113759--54113813	21	2.5	22	85	5	76	60	21	10	7	1.55
54114079--54114249	61	2.8	62	80	5	168	21	21	18	39	1.93
54114139--54114267	63	2.1	61	83	2	159	21	17	17	43	1.88
54118220--54118292	36	2.1	35	87	5	103	30	13	6	49	1.68
54121783--54121811	3	9.7	3	100	0	58	0	34	0	65	0.93
54127236--54127272	2	18.5	2	100	0	74	51	0	0	48	1.00
54130078--54130107	15	1.9	16	93	6	53	30	0	3	66	1.07
54132608--54132704	20	5.2	18	71	15	65	53	3	1	42	1.23
54132645--54132721	35	2.2	36	90	2	120	53	2	1	42	1.23
54132648--54132707	9	6.5	10	70	22	51	55	1	0	43	1.10
54136719--54136844	43	2.9	43	79	9	148	30	25	17	26	1.97
54144246--54144289	19	2.3	19	92	0	70	27	9	27	36	1.87
54161673--54161709	18	2.0	19	89	5	58	48	2	13	35	1.57
54164139--54164187	12	4.1	12	82	10	64	0	20	30	48	1.50
54164140--54164185	24	1.9	24	90	0	74	0	21	28	50	1.49
54165522--54165568	18	2.6	18	83	6	51	42	4	4	48	1.42
54166097--54166125	13	2.1	14	93	6	51	58	0	0	41	0.98
54166096--54166150	18	3.1	18	73	21	53	50	0	1	47	1.11
54166235--54166272	14	2.7	15	84	8	53	44	0	0	55	0.99
54167066--54167108	18	2.4	18	88	3	61	37	4	0	58	1.19
54169523--54169569	22	2.0	24	84	15	64	55	10	10	23	1.65
54173959--54173995	18	2.0	20	89	10	60	64	0	8	27	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54174135--54174182	23	2.0	24	88	4	71	6	4	18	70	1.25
54174135--54174186	21	2.4	22	84	12	63	7	3	17	71	1.25
54178678--54178703	11	2.4	11	100	0	52	30	0	0	69	0.89
54180742--54180809	19	3.7	18	71	11	50	35	0	5	58	1.22
54180730--54180771	20	2.0	22	86	9	61	30	0	4	64	1.14
54180773--54180827	18	2.9	19	84	10	69	38	0	7	54	1.28
54180773--54180827	19	3.0	18	86	7	67	38	0	7	54	1.28
54180743--54180816	36	2.1	36	81	0	85	39	0	5	55	1.23
54182538--54182571	11	3.2	11	87	8	52	79	0	20	0	0.73
54182537--54182573	14	2.7	13	88	12	56	78	0	21	0	0.75
54185379--54185487	36	3.0	36	97	0	200	37	12	20	29	1.90
54185407--54185472	21	3.5	20	63	25	52	34	12	19	33	1.89
54185343--54185576	82	2.8	84	74	20	226	35	13	21	29	1.92
54190079--54190161	26	3.2	26	68	27	77	25	13	27	33	1.93
54190075--54190262	51	3.7	50	83	6	209	24	15	27	32	1.95
54190076--54190271	101	1.9	101	83	5	252	24	15	28	32	1.95
54190266--54190297	16	2.0	16	100	0	64	37	18	25	18	1.94
54192734--54192776	20	2.3	19	80	11	52	37	2	0	60	1.10
54197689--54197821	62	2.2	59	84	6	162	40	3	4	51	1.40
54206808--54206875	31	2.2	31	86	0	100	36	11	17	33	1.86
54208285--54208327	3	14.3	3	95	0	77	67	30	0	2	1.03
54209702--54209760	27	2.1	28	87	3	84	35	0	1	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54211847--54211877	14	2.2	14	94	0	53	48	12	0	38	1.42
54214344--54214401	14	4.5	12	77	10	53	72	1	8	17	1.18
54218266--54218307	16	2.5	17	78	17	52	30	4	7	57	1.47
54219772--54219823	14	3.8	14	79	2	61	26	0	26	46	1.53
54219772--54219824	28	1.9	27	92	3	88	28	0	26	45	1.54
54219767--54219824	21	2.8	21	81	5	55	29	0	27	43	1.55
54221333--54221365	16	2.2	16	89	10	52	81	0	3	15	0.80
54224574--54224640	29	2.3	30	89	7	111	47	4	1	46	1.31
54229145--54229199	19	2.7	21	88	5	78	36	9	16	38	1.80
54229157--54229222	21	3.0	24	83	12	72	37	7	16	37	1.77
54230136--54230196	4	15.5	4	83	10	63	19	0	6	73	1.04
54230203--54230244	19	2.2	20	82	4	50	30	7	11	50	1.66
54233176--54233207	2	17.0	2	87	12	50	50	0	0	50	1.00
54238161--54238212	25	2.0	27	85	7	72	32	9	5	51	1.58
54242436--54242464	14	2.0	15	93	6	51	51	0	6	41	1.28
54245615--54245672	26	2.2	25	81	6	71	36	5	12	46	1.63
54245685--54245733	9	5.4	9	80	9	64	30	10	18	40	1.84
54245685--54245733	18	2.7	18	87	6	73	30	10	18	40	1.84
54246801--54247112	17	17.4	18	72	21	187	45	10	11	32	1.75
54246837--54247114	36	7.7	37	74	16	169	44	10	11	32	1.76
54246839--54247094	90	2.9	88	80	10	270	44	10	12	31	1.77
54246837--54247112	19	15.3	18	71	15	115	44	10	11	32	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54247164--54247228	30	2.2	30	94	2	114	63	7	13	15	1.51
54247240--54247304	17	3.7	18	81	8	71	47	4	15	32	1.66
54247249--54247303	18	3.2	17	84	7	58	47	5	18	29	1.71
54247602--54247641	17	2.3	17	86	4	53	70	0	0	30	0.88
54247792--54247845	7	7.9	7	85	10	76	0	14	0	85	0.61
54247791--54247860	22	3.3	21	80	7	79	1	15	0	82	0.73
54247790--54247862	13	5.6	13	76	10	69	1	16	0	82	0.75
54247795--54247869	14	5.4	13	73	17	53	1	20	0	78	0.82
54248318--54248365	25	1.9	25	87	8	71	2	25	0	72	0.95
54248351--54248400	26	2.0	26	84	4	66	0	18	10	72	1.12
54248352--54248408	26	2.1	27	81	9	64	0	15	12	71	1.13
54248728--54248839	30	3.8	29	80	9	120	45	0	17	35	1.55
54249643--54249699	29	2.0	29	85	0	78	40	12	17	29	1.86
54250645--54250722	27	2.9	27	94	0	129	19	24	32	24	1.98
54250756--54250792	14	2.6	14	91	0	65	54	5	5	35	1.47
54250941--54251062	60	2.0	60	90	3	192	54	12	0	32	1.37
54251056--54251364	42	7.5	42	73	17	190	55	14	0	30	1.40
54251039--54251342	80	3.7	80	85	10	393	56	13	0	30	1.37
54251050--54251262	23	10.2	21	75	15	169	55	14	0	30	1.40
54251216--54251465	101	2.5	101	92	1	414	56	12	0	30	1.39
54251055--54251468	19	20.3	20	72	17	218	55	13	0	30	1.41
54251473--54251545	27	2.7	27	84	0	101	16	27	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54252416--54252446	14	2.1	15	94	5	55	74	0	0	25	0.82
54253648--54253816	85	2.0	85	94	2	295	30	11	20	37	1.87
54255909--54255994	42	2.0	42	95	0	154	22	20	27	29	1.99
54262821--54262874	22	2.3	24	87	6	76	33	5	5	55	1.46
54266194--54266377	59	3.1	58	89	3	278	57	0	2	40	1.11
54266194--54266358	11	16.4	11	66	26	91	56	0	2	41	1.12
54266342--54266386	16	2.7	17	79	6	56	60	0	0	40	0.97
54266642--54266945	94	3.0	95	79	14	344	36	20	13	29	1.90
54266736--54266950	113	2.0	107	85	7	288	35	20	13	29	1.92
54266551--54266945	207	1.9	200	88	4	585	36	19	13	30	1.90

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   
          209   210