genome.fa.s13.2.7.7.80.10.50.1000.87.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  87  of  199  ( 23770 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)
26588719--26588757	20	2.0	20	94	0	69	74	7	0	17	1.05
26601305--26601429	43	2.9	42	80	10	146	22	18	29	29	1.97
26602272--26602344	23	3.1	23	76	3	83	24	19	15	41	1.89
26602368--26602417	23	2.2	23	85	0	64	30	18	16	36	1.92
26602376--26602419	23	1.9	23	90	0	70	27	15	15	40	1.88
26602309--26602489	71	2.5	74	78	8	187	28	14	19	37	1.91
26609161--26609285	43	2.9	43	75	14	132	24	19	27	29	1.98
26610127--26610197	23	3.0	23	77	4	88	22	21	15	40	1.90
26610231--26610274	23	1.9	23	85	0	61	29	15	13	40	1.86
26620804--26621045	50	4.9	50	82	2	247	21	28	21	28	1.98
26631059--26631200	72	2.0	70	81	8	162	41	11	7	40	1.68
26631340--26631423	41	2.0	42	88	2	125	34	20	17	27	1.95
26633090--26633138	25	2.0	25	88	8	73	51	2	0	46	1.12
26640565--26640645	42	1.9	42	82	9	103	23	19	24	32	1.98
26648011--26648051	22	1.9	21	85	14	57	73	2	7	17	1.17
26651483--26651676	99	2.0	99	90	2	309	33	17	19	29	1.95
26653072--26653106	19	1.9	19	88	11	56	31	37	0	31	1.58
26658378--26658503	37	3.4	36	79	6	101	34	12	15	37	1.86
26658405--26658510	37	2.8	37	82	4	124	29	14	17	38	1.89
26676163--26676221	25	2.4	25	77	11	59	38	3	1	55	1.26
26679959--26680018	30	2.0	30	100	0	120	43	20	13	23	1.86
26694485--26694730	50	4.8	50	78	5	201	30	21	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26705880--26705931	20	2.7	20	87	3	70	21	28	15	34	1.94
26711897--26711945	21	2.3	20	89	6	71	57	2	2	38	1.22
26712148--26712190	18	2.4	19	76	11	54	44	2	6	46	1.43
26712373--26712423	19	2.6	21	79	17	65	49	0	1	49	1.12
26712371--26712419	17	2.7	18	87	6	64	44	0	2	53	1.12
26712988--26713082	49	1.9	49	89	0	145	26	22	11	40	1.88
26720261--26720295	5	6.6	5	93	6	52	45	0	0	54	0.99
26721026--26721137	37	2.8	39	72	9	102	29	16	21	32	1.96
26727201--26727274	5	14.8	5	100	0	148	40	0	0	59	0.97
26728927--26728977	19	2.8	18	80	8	59	64	1	5	27	1.27
26728927--26728983	25	2.4	24	80	8	62	63	1	5	29	1.27
26730387--26730669	50	5.6	50	70	5	196	24	20	22	32	1.98
26730380--26730750	100	3.7	100	88	2	523	25	19	23	31	1.98
26730437--26730720	50	5.7	50	70	6	189	25	19	22	33	1.97
26730848--26731396	44	11.8	44	68	16	169	27	20	17	34	1.95
26730797--26731367	142	4.0	142	91	0	917	27	20	17	34	1.95
26732779--26732819	13	2.9	15	78	14	50	7	19	0	73	1.07
26732770--26732819	21	2.3	21	80	10	57	10	20	0	70	1.16
26737095--26737145	19	2.8	18	80	8	59	64	1	5	27	1.27
26737090--26737151	25	2.5	24	80	10	63	61	3	4	30	1.33
26739083--26739219	40	3.5	39	74	7	116	24	18	25	31	1.97
26740763--26740803	19	2.2	19	100	0	82	31	24	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26743000--26743076	26	3.0	25	84	5	100	32	15	10	41	1.81
26743221--26743249	12	2.4	12	100	0	58	17	24	0	58	1.38
26749182--26749305	51	2.5	48	77	3	140	41	20	24	13	1.89
26750487--26750889	51	7.9	51	89	0	545	29	16	24	29	1.97
26750905--26751012	44	2.5	44	85	8	132	26	22	20	30	1.98
26752688--26752739	20	2.5	20	81	3	68	38	7	0	53	1.30
26752717--26752764	25	1.9	25	91	0	78	31	8	2	58	1.39
26753230--26753295	33	1.9	35	85	11	93	33	3	7	56	1.43
26756760--26756793	3	11.3	3	100	0	68	67	0	0	32	0.91
26761903--26761947	8	6.1	8	75	19	53	24	0	11	64	1.26
26762804--26762923	42	2.9	42	87	5	197	50	5	3	41	1.41
26765450--26765504	9	6.1	9	91	0	74	36	12	38	12	1.82
26765546--26765610	22	3.2	22	70	20	77	30	3	16	49	1.61
26765557--26765618	19	3.2	19	70	20	65	35	1	12	50	1.51
26765540--26765633	39	2.4	39	100	0	188	36	2	17	44	1.60
26765540--26765652	39	2.9	38	89	5	120	36	1	16	45	1.58
26769977--26770017	18	2.4	17	84	8	55	48	4	9	36	1.58
26774008--26774092	40	2.1	40	82	4	100	29	5	7	57	1.49
26778726--26778783	30	1.9	30	82	0	71	46	5	5	43	1.48
26783307--26783367	30	2.1	29	82	14	72	22	9	3	63	1.39
26786932--26786980	25	1.9	27	84	12	68	20	20	8	51	1.73
26787649--26787695	7	6.7	7	83	9	60	78	12	0	8	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26787635--26787710	22	3.5	21	82	13	84	76	10	3	9	1.14
26787624--26787694	28	2.6	28	86	6	92	76	9	4	9	1.15
26787647--26787702	16	3.8	16	73	26	68	78	12	0	8	0.96
26787647--26787711	21	3.0	23	86	6	91	75	12	1	10	1.12
26792010--26792037	2	14.0	2	100	0	56	50	0	0	50	1.00
26792112--26792172	30	2.1	29	82	14	72	22	9	3	63	1.39
26793151--26793263	50	2.2	52	88	3	167	41	13	13	31	1.83
26794469--26794507	18	2.2	18	86	9	53	30	2	5	61	1.31
26801167--26801227	4	15.2	4	76	11	54	24	1	3	70	1.11
26801185--26801227	19	2.2	20	95	4	79	30	2	0	67	1.03
26811954--26811989	16	2.2	16	100	0	72	25	0	36	38	1.56
26812112--26812428	157	2.0	157	95	0	571	44	3	5	47	1.42
26812362--26812403	15	2.7	16	82	14	52	52	2	0	45	1.13
26812371--26812412	15	2.9	15	82	10	52	52	0	0	47	1.00
26812397--26812587	61	3.2	61	69	16	198	48	6	2	42	1.40
26812360--26812657	120	2.5	121	92	4	496	50	4	2	42	1.36
26812481--26812532	15	3.6	15	80	12	56	53	1	0	44	1.11
26812673--26812873	83	2.3	90	83	10	247	46	3	4	45	1.42
26817452--26817491	16	2.5	16	91	0	62	47	2	7	42	1.45
26817502--26817641	59	2.4	59	97	0	262	39	4	10	46	1.57
26817623--26817650	9	3.1	9	100	0	56	32	0	10	57	1.33
26817747--26817790	24	1.9	24	90	9	74	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26818153--26818213	13	4.7	13	76	13	63	29	4	26	39	1.77
26818431--26818503	21	3.6	19	78	10	65	50	0	1	47	1.09
26818384--26818503	29	4.0	29	70	22	79	49	0	1	49	1.11
26818407--26818507	31	3.2	31	72	16	82	48	0	1	49	1.12
26820301--26820435	72	1.9	72	90	0	216	55	14	5	24	1.61
26820866--26820913	18	2.7	18	93	0	78	41	12	12	33	1.80
26823780--26823876	25	4.1	25	84	12	143	47	25	25	1	1.59
26824282--26824343	6	10.2	6	78	3	52	50	0	4	45	1.23
26824267--26824349	25	3.4	25	80	6	109	53	0	3	43	1.18
26825805--26825839	19	1.9	18	88	11	54	68	0	2	28	1.04
26825810--26825867	22	2.8	21	82	12	66	60	3	5	31	1.35
26831915--26831965	18	2.7	19	82	14	61	60	7	0	31	1.25
26832334--26832393	30	2.0	30	84	12	79	18	31	23	26	1.97
26834568--26834592	6	4.2	6	100	0	50	68	0	0	32	0.90
26836234--26836258	9	2.8	9	100	0	50	64	0	12	24	1.27
26839929--26839991	24	2.6	25	82	2	74	25	22	25	26	2.00
26844522--26844597	26	2.9	26	86	0	116	34	14	9	42	1.78
26846002--26846035	17	2.1	16	89	10	52	70	11	0	17	1.16
26846203--26846265	23	2.7	23	80	4	74	65	12	6	15	1.46
26859855--26860042	51	3.7	51	76	10	206	29	28	17	24	1.97
26859843--26860034	100	1.9	102	83	4	237	29	28	17	24	1.97
26869651--26869732	41	2.0	41	100	0	164	53	12	0	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26872522--26872565	22	1.9	22	81	9	52	38	13	6	40	1.71
26885169--26885216	17	2.9	17	78	3	53	27	18	8	45	1.78
26893469--26893528	30	2.0	29	84	12	77	20	11	8	60	1.57
26907599--26907637	20	2.0	20	89	0	60	23	20	23	33	1.97
26907810--26907881	21	3.3	21	71	17	65	68	1	1	29	1.07
26907892--26907977	32	2.4	36	74	16	83	60	2	2	34	1.22
26908197--26908321	58	2.2	59	88	5	184	35	0	3	61	1.12
26908196--26908338	58	2.4	59	83	5	164	34	0	3	61	1.13
26909608--26909671	33	1.9	33	87	6	94	26	23	21	28	1.99
26912447--26912476	7	4.3	7	91	0	51	13	10	13	63	1.52

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