genome.fa.s11.2.7.7.80.10.50.1000.200.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  200  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)
58830185--58830223	19	2.1	19	85	4	53	33	7	5	53	1.51
58833365--58833606	112	2.2	111	84	5	310	30	21	18	30	1.96
58838952--58839000	19	2.4	21	80	16	59	32	4	0	63	1.13
58840052--58840083	15	2.2	15	94	5	57	31	0	0	68	0.90
58840692--58840749	22	2.8	22	78	21	63	32	3	0	63	1.11
58851396--58851468	34	2.2	33	85	2	92	9	6	12	71	1.31
58857393--58857456	17	3.6	19	78	19	68	76	0	7	15	1.00
58857401--58857444	10	4.8	9	83	11	54	77	0	9	13	0.99
58857401--58857457	22	2.6	22	78	8	62	78	0	7	14	0.94
58870331--58870490	71	2.3	71	89	0	239	31	14	15	38	1.88
58874374--58874450	37	2.1	37	100	0	154	22	14	25	37	1.92
58882681--58883218	162	3.3	162	92	0	880	36	17	19	26	1.94
58886581--58886637	29	2.0	29	96	0	105	22	24	14	38	1.91
58887279--58887317	20	1.9	20	89	5	60	28	7	0	64	1.21
58906783--58906861	36	2.2	35	80	6	86	32	25	16	25	1.96
58906877--58906916	19	2.1	19	85	0	53	22	10	32	35	1.87
58910045--58910182	72	2.0	68	85	8	188	31	19	13	35	1.90
58910267--58910299	13	2.4	14	95	5	59	63	0	0	36	0.95
58915053--58915486	50	8.6	51	80	5	481	29	27	19	23	1.98
58914992--58915497	51	10.0	50	75	8	456	29	27	18	24	1.98
58915000--58915486	101	4.8	101	92	3	786	29	27	18	24	1.98
58923933--58923968	17	2.1	18	89	5	56	36	2	33	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58929992--58930058	19	3.5	19	83	4	98	34	28	7	29	1.85
58929990--58930045	20	2.9	19	83	2	76	37	28	7	26	1.83
58934774--58934808	17	1.9	18	88	11	54	54	0	0	45	0.99
58940961--58941044	30	2.9	29	73	7	89	45	3	0	51	1.18
58941021--58941066	22	2.1	22	83	0	56	47	4	0	47	1.21
58941183--58941208	7	3.7	7	100	0	52	38	0	0	61	0.96
58942400--58942429	15	2.0	15	100	0	60	33	6	13	46	1.69
58948857--58948899	21	2.1	20	91	4	68	25	6	0	67	1.15
58950097--58950127	16	1.9	16	100	0	62	35	0	0	64	0.94
58951621--58951670	20	2.5	20	81	12	57	44	0	2	54	1.11
58954737--58954768	16	1.9	17	93	6	57	84	0	12	3	0.74
58957251--58957298	23	2.0	23	84	12	60	56	2	0	41	1.11
58957397--58957493	31	3.2	31	73	2	106	51	1	3	44	1.24
58970745--58970858	40	3.0	36	74	14	95	44	0	0	53	1.12
58971498--58971533	14	2.6	14	90	0	54	25	22	11	41	1.86
58973496--58973622	22	5.8	22	89	0	182	27	25	14	32	1.94
58993457--58993503	18	2.6	18	79	0	58	25	19	27	27	1.99
59009073--59009291	109	2.0	109	97	0	411	25	20	20	33	1.97
59009922--59010387	124	3.8	124	92	1	783	29	14	21	34	1.93
59009922--59010387	246	1.9	247	96	0	862	29	14	21	34	1.93
59013283--59013411	22	5.5	22	72	16	107	41	0	28	30	1.57
59013247--59013413	73	2.3	73	91	1	282	43	0	27	28	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59013396--59013428	10	3.0	11	86	13	50	45	0	36	18	1.49
59018018--59018071	24	2.3	24	83	3	65	38	0	7	53	1.29
59019523--59019553	3	10.3	3	100	0	62	64	0	0	35	0.94
59020591--59020620	6	4.8	6	95	4	51	0	13	3	83	0.77
59024566--59024625	23	2.5	24	76	13	70	31	1	0	66	1.01
59025372--59025411	21	2.0	21	90	5	64	30	7	0	62	1.23
59027586--59027645	29	2.1	28	85	14	79	65	5	6	23	1.37
59027581--59027647	28	2.4	26	81	16	73	61	5	5	26	1.43
59028237--59028276	21	2.0	21	90	5	64	30	7	0	62	1.23
59028733--59028758	13	2.0	13	100	0	52	38	15	23	23	1.92
59030987--59031238	111	2.3	111	79	6	303	30	21	18	29	1.97
59078068--59078097	15	1.9	16	93	6	53	23	3	0	73	0.98
59078483--59078509	11	2.5	11	100	0	54	29	0	0	70	0.88
59083723--59083752	6	5.0	6	100	0	60	16	16	50	16	1.79
59084473--59084499	2	13.5	2	100	0	54	51	0	0	48	1.00
59086391--59086438	24	2.0	24	100	0	96	45	29	8	16	1.76
59090294--59090453	71	2.3	71	93	0	266	30	13	16	38	1.88
59092023--59092053	3	10.3	3	100	0	62	64	0	0	35	0.94
59093090--59093119	6	4.8	6	95	4	51	0	13	3	83	0.77
59095373--59095413	20	2.0	20	100	0	82	56	0	24	19	1.42
59099682--59099741	23	2.5	25	81	10	72	33	3	0	63	1.11
59103528--59103591	21	3.0	21	88	0	83	39	18	25	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59118962--59119006	23	2.0	22	87	8	65	40	4	2	53	1.33
59119723--59119773	17	3.0	17	88	5	77	45	1	1	50	1.24
59119744--59119994	122	2.1	122	97	0	475	45	6	3	44	1.47
59130920--59130964	23	2.0	22	87	8	65	40	4	2	53	1.33
59132859--59133272	17	23.8	17	68	19	103	45	11	11	31	1.76
59132875--59132956	36	2.3	35	83	6	94	42	14	9	32	1.79
59132998--59133281	18	16.1	18	74	16	222	44	10	13	32	1.77
59133002--59133281	35	8.0	34	78	11	262	44	10	12	31	1.77
59132998--59133281	53	5.4	50	76	15	218	44	10	13	32	1.77
59133188--59133282	17	5.5	17	77	5	82	43	9	11	35	1.74
59133403--59133449	19	2.5	19	75	3	51	42	10	12	34	1.78
59133799--59133841	16	2.6	16	92	3	68	0	18	0	81	0.69
59133831--59133864	13	2.6	13	95	0	59	0	23	0	76	0.79
59133799--59133841	8	5.2	8	83	5	59	0	18	0	81	0.69
59134157--59134225	4	18.5	4	79	11	60	1	26	0	72	0.93
59134157--59134209	27	2.0	27	88	0	79	0	26	0	73	0.83
59134154--59134221	7	9.0	7	79	17	66	1	26	0	72	0.94
59134157--59134225	17	4.7	15	76	20	74	1	26	0	72	0.93
59134729--59134864	30	4.6	30	76	9	136	41	2	24	31	1.70
59134708--59134860	59	2.6	59	86	5	193	39	2	25	32	1.70
59139901--59139964	22	2.9	21	81	9	65	39	6	3	51	1.43
59141834--59141879	24	1.9	24	86	0	65	43	19	2	34	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59145594--59145636	17	2.6	16	82	13	52	39	0	18	41	1.51
59145580--59145623	17	2.5	19	82	17	60	36	0	20	43	1.52
59145757--59145799	18	2.4	18	88	0	68	65	9	4	20	1.40
59147156--59147191	12	3.0	12	91	0	54	41	0	0	58	0.98
59160976--59161018	3	14.7	3	90	4	70	69	0	30	0	0.88
59162587--59162614	2	14.0	2	100	0	56	50	0	0	50	1.00
59163410--59163477	31	2.2	31	94	0	118	42	16	16	25	1.87
59163987--59164077	42	2.2	42	95	0	164	20	9	27	41	1.84
59164558--59164603	25	1.9	25	82	8	60	10	13	13	63	1.53
59169130--59169171	13	3.4	12	84	12	50	59	0	2	38	1.10
59172419--59172467	22	2.1	24	82	14	59	55	2	8	34	1.41
59173514--59173551	6	6.2	6	85	14	51	81	0	5	13	0.85
59174468--59174493	13	2.0	13	100	0	52	61	0	7	30	1.24
59174499--59174532	8	4.1	8	96	3	59	14	0	0	85	0.60
59174651--59174721	19	3.7	18	76	22	65	66	1	1	30	1.09
59174666--59174725	10	6.1	10	78	16	63	66	0	1	31	1.01
59174985--59175028	21	2.1	21	82	0	52	59	18	4	18	1.55
59175559--59175617	27	2.3	27	82	5	77	23	3	13	59	1.50
59175777--59175821	6	7.2	6	85	9	63	77	0	0	22	0.76
59176913--59176986	36	2.1	36	100	0	148	33	8	28	29	1.86
59178317--59178384	28	2.4	28	85	7	93	19	20	26	33	1.96
59178317--59178392	28	2.7	28	83	2	89	19	21	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59178680--59178717	15	2.5	15	83	8	51	39	18	13	28	1.88
59182575--59182612	14	2.7	15	84	12	53	18	7	2	71	1.23
59185314--59185350	2	18.5	2	100	0	74	51	0	0	48	1.00
59189889--59189949	29	2.1	30	84	9	81	29	14	6	49	1.69
59201319--59201359	2	20.5	2	100	0	82	48	0	0	51	1.00
59202477--59202519	22	2.0	22	90	0	68	9	18	27	44	1.80
59202613--59202926	43	7.3	41	83	7	342	31	29	18	21	1.96
59202613--59202950	129	2.6	127	80	9	382	31	28	18	21	1.97
59202613--59202926	86	3.7	86	89	0	475	31	29	18	21	1.96
59204020--59204207	86	2.2	85	87	2	277	42	15	7	34	1.77

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