genome.fa.s10.2.7.7.80.10.50.1000.23.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  23  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)
6774652--6774846	94	2.1	95	84	5	254	27	20	19	32	1.97
6774543--6774796	44	5.6	44	72	16	189	28	19	20	31	1.97
6785670--6785713	20	2.2	20	88	8	63	72	4	4	18	1.19
6791106--6791139	16	2.1	16	88	0	50	35	0	11	52	1.38
6793068--6793949	29	30.4	29	90	1	1245	32	1	22	43	1.64
6796220--6796275	29	1.9	29	89	7	87	55	1	0	42	1.10
6796311--6796362	22	2.4	21	87	9	77	36	0	32	30	1.58
6801086--6801243	43	3.7	43	79	7	160	29	27	17	25	1.98
6801086--6801243	44	3.7	42	79	9	158	29	27	17	25	1.98
6802421--6802525	45	2.3	45	83	6	140	22	15	17	44	1.86
6805159--6805283	44	2.8	44	80	4	137	27	20	20	31	1.98
6824052--6824086	5	6.6	5	96	3	52	57	0	0	42	0.99
6828649--6829160	264	1.9	267	84	4	698	40	12	12	33	1.82
6829597--6829627	5	6.2	5	100	0	62	41	19	19	19	1.90
6832969--6832999	5	6.2	5	100	0	62	41	19	19	19	1.90
6833761--6833793	16	2.1	16	94	0	57	42	0	30	27	1.56
6833765--6833828	30	2.1	30	85	0	83	42	0	35	21	1.54
6834115--6834145	9	3.4	9	90	0	53	38	22	12	25	1.90
6837612--6837650	19	1.9	19	85	10	51	61	0	7	30	1.24
6840441--6840486	23	2.0	24	86	4	67	45	2	0	52	1.13
6841876--6841984	25	4.6	23	72	18	98	38	1	0	59	1.08
6841889--6841940	19	2.7	18	85	11	68	40	1	0	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6841907--6841983	27	3.0	26	79	11	88	37	1	0	61	1.05
6841923--6842011	33	2.5	34	83	13	117	33	2	1	62	1.15
6842866--6842895	6	5.0	6	100	0	60	33	0	0	66	0.92
6845595--6845627	15	2.1	16	88	5	50	30	0	3	66	1.06
6845622--6845660	20	1.9	20	89	5	60	51	0	0	48	1.00
6846548--6846639	22	4.2	22	88	0	112	30	27	0	42	1.56
6846589--6846691	52	2.0	51	83	9	129	33	32	0	34	1.58
6846641--6846682	22	1.9	22	90	0	66	33	33	0	33	1.58
6846725--6846781	30	1.9	30	92	7	98	36	0	1	61	1.07
6849115--6849203	23	3.8	23	81	8	117	44	25	0	29	1.54
6849147--6849485	28	12.5	28	78	13	311	46	21	0	31	1.51
6849321--6849363	23	2.0	20	95	4	59	48	25	0	25	1.51
6854867--6854892	13	2.0	13	100	0	52	0	0	15	84	0.62
6854931--6855043	30	3.8	30	88	5	167	23	23	4	49	1.68
6854931--6855043	59	1.9	59	87	8	167	23	23	4	49	1.68
6855368--6855471	33	3.1	33	77	10	111	15	50	9	24	1.73
6855338--6855471	68	2.0	68	84	0	178	14	49	11	25	1.76
6855316--6855472	35	4.5	35	79	3	129	13	49	11	25	1.75
6855810--6855855	22	2.1	22	88	8	67	30	41	19	8	1.82
6855907--6855947	11	3.8	11	78	15	50	80	0	19	0	0.71
6863823--6863858	18	2.0	18	100	0	72	27	22	11	38	1.88
6868177--6868221	21	2.2	20	84	11	56	73	0	8	17	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6871238--6871335	47	2.0	48	86	9	137	23	24	6	45	1.75
6872587--6872652	31	2.1	31	100	0	132	34	25	12	27	1.91
6885357--6885418	29	2.1	29	81	0	70	30	14	14	40	1.86
6885696--6885967	125	2.2	126	91	5	439	29	14	22	33	1.94
6889175--6889744	29	19.6	29	85	5	715	31	1	22	44	1.61
6889310--6889354	22	2.0	22	86	8	63	28	0	24	46	1.53
6890908--6890946	7	5.6	7	100	0	78	58	12	0	28	1.34
6891904--6891937	15	2.3	15	90	5	52	67	5	0	26	1.13
6892035--6892093	30	2.0	30	87	6	86	57	1	0	40	1.09
6892125--6892177	22	2.4	23	78	6	65	35	0	30	33	1.58
6892149--6892207	30	2.0	30	89	0	91	37	1	32	28	1.67
6892182--6892232	22	2.3	22	93	0	84	45	1	29	23	1.64
6895349--6895691	44	7.8	44	83	6	370	31	22	13	32	1.92
6895792--6896084	44	6.7	44	89	0	424	33	25	13	28	1.93
6907991--6908031	3	14.0	3	89	5	66	63	0	0	36	0.95
6907992--6908053	9	6.9	9	77	14	56	58	1	3	37	1.24
6909634--6909786	41	3.8	41	81	6	143	21	18	28	32	1.97
6911655--6911699	19	2.4	19	85	7	65	35	42	0	22	1.54
6912029--6912165	41	3.2	42	85	5	177	32	23	19	24	1.97
6918341--6918391	19	2.7	19	88	11	86	31	0	17	50	1.46
6918376--6918537	12	13.8	12	68	13	79	27	1	19	51	1.55
6918476--6918544	24	3.0	24	87	8	92	27	1	17	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6918496--6918550	24	2.5	22	85	8	67	27	1	21	49	1.60
6918676--6918730	19	2.9	18	86	5	65	54	1	0	43	1.10
6918681--6918732	17	2.8	19	80	13	65	53	1	0	44	1.11
6918734--6918814	9	9.0	9	67	15	51	38	1	18	41	1.58
6918771--6918819	18	2.9	17	85	8	64	42	2	18	36	1.62
6918894--6918928	15	2.3	15	100	0	70	45	5	0	48	1.26
6919990--6920048	23	2.6	23	100	0	118	27	13	11	47	1.78
6920120--6920204	37	2.3	37	97	0	161	51	18	17	11	1.75
6920683--6920773	45	2.0	45	91	0	146	36	8	31	23	1.85
6921963--6922016	21	2.5	20	74	11	54	44	42	0	12	1.43
6922385--6922743	115	3.1	115	90	0	592	29	21	19	29	1.97
6922709--6923153	229	2.0	225	79	7	490	25	22	19	32	1.97
6924032--6924077	22	2.1	22	84	8	58	23	2	6	67	1.25
6925121--6925162	18	2.4	17	80	7	57	45	14	0	40	1.45
6925236--6925351	54	2.1	54	98	0	223	39	4	3	52	1.38
6925250--6925338	28	3.2	28	71	23	98	42	3	4	49	1.39
6925394--6925435	22	2.0	21	85	4	57	33	2	4	59	1.31
6925427--6925490	30	2.1	31	88	2	94	46	9	4	39	1.57
6925517--6925583	30	2.2	30	81	0	71	40	10	7	41	1.67
6925596--6925786	9	22.2	9	74	15	138	49	20	1	28	1.59
6925612--6925636	12	2.1	12	100	0	50	52	16	0	32	1.44
6925692--6925786	50	1.9	50	93	0	163	47	22	1	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6925716--6925786	34	2.1	33	84	10	90	47	22	1	28	1.59
6925596--6925786	16	11.1	17	70	19	121	49	20	1	28	1.59
6925600--6925786	25	7.6	25	78	9	62	49	20	1	28	1.59
6925802--6925872	21	3.4	21	84	0	88	35	15	42	7	1.74
6926219--6926515	43	6.8	43	89	2	459	27	18	28	24	1.98
6928969--6929021	3	17.7	3	76	7	54	32	3	1	62	1.24
6939301--6939329	11	2.6	11	100	0	58	41	24	6	27	1.80
6939616--6939711	44	2.2	44	81	3	113	35	19	16	28	1.94
6940105--6940142	3	12.7	3	100	0	76	68	0	0	31	0.90
6944939--6944971	6	5.3	6	92	7	57	15	0	45	39	1.46
6945157--6945570	125	3.3	125	91	1	659	33	17	19	29	1.95
6945934--6946054	49	2.5	49	95	0	215	44	7	3	44	1.48
6946475--6946518	18	2.4	18	88	0	61	45	6	25	22	1.77
6948290--6948347	29	2.1	27	81	9	64	56	5	3	34	1.38
6948355--6948397	10	4.0	10	82	14	50	46	0	30	23	1.52
6949024--6949516	259	1.9	257	84	4	652	41	11	12	34	1.80
6949865--6949894	15	2.0	15	100	0	60	40	20	0	40	1.52
6956639--6956859	101	2.1	100	83	10	277	41	13	18	27	1.87
6963941--6963983	18	2.4	18	96	0	77	51	0	2	46	1.13
6964059--6964096	19	2.0	19	100	0	76	47	10	10	31	1.72
6964906--6964938	15	2.1	16	88	5	50	30	0	3	66	1.06
6964933--6964977	22	2.0	22	87	8	65	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6965754--6965809	18	2.9	19	87	12	80	41	5	0	53	1.24
6965861--6965901	17	2.4	17	88	8	57	78	4	0	17	0.93
6966751--6966834	29	2.8	28	73	10	78	34	3	4	57	1.37
6966751--6966845	30	3.1	28	71	16	75	33	4	5	56	1.41
6967418--6967527	30	3.8	29	77	10	118	26	18	2	52	1.58
6967824--6968026	68	3.0	67	78	9	225	15	52	10	22	1.72
6967807--6968026	33	6.5	34	80	8	218	14	52	10	21	1.72
6968150--6968209	20	3.1	18	81	13	66	81	3	15	0	0.81
6968152--6968210	12	5.2	11	80	10	57	83	3	13	0	0.78
6968941--6969001	29	2.1	29	93	0	104	26	1	0	72	0.94

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