genome.fa.s13.2.7.7.80.10.50.1000.77.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  77  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)
23290428--23290703	54	5.1	54	80	7	260	14	20	22	42	1.88
23290430--23290651	80	2.8	81	84	6	292	14	19	22	43	1.87
23290431--23290695	134	2.0	135	82	5	322	14	20	22	42	1.88
23291396--23291434	10	3.9	10	79	0	51	74	0	25	0	0.82
23291396--23291437	15	2.9	14	89	10	66	76	0	23	0	0.79
23291396--23291440	13	3.2	13	82	17	54	73	0	26	0	0.84
23294677--23294930	78	3.3	78	89	1	377	38	3	16	41	1.66
23294677--23294966	154	1.9	153	80	6	347	38	4	16	39	1.70
23295276--23295438	64	2.5	66	88	4	267	29	7	18	44	1.78
23295289--23295449	31	5.0	31	76	13	148	28	8	19	44	1.79
23295392--23295473	35	2.3	35	82	0	92	31	7	18	42	1.77
23297068--23297100	14	2.4	14	90	10	50	30	21	30	18	1.97
23296951--23297173	117	1.9	118	87	0	331	31	17	29	21	1.96
23297127--23297181	28	2.0	28	85	7	76	29	16	34	20	1.94
23303193--23303227	6	5.8	6	100	0	70	17	14	17	51	1.77
23306106--23306141	17	2.1	18	89	5	56	11	25	41	22	1.86
23306163--23306223	31	2.0	31	90	0	95	16	26	37	19	1.93
23308969--23309062	35	2.7	34	77	6	91	67	1	7	24	1.23
23308997--23309080	20	4.2	20	77	17	86	66	0	7	26	1.17
23309941--23309984	18	2.4	18	82	14	54	68	6	22	2	1.25
23310703--23310840	44	2.9	48	85	9	203	25	22	20	31	1.98
23311097--23311274	44	4.0	43	78	7	178	27	21	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23312162--23312205	6	7.8	6	76	23	51	0	15	0	84	0.63
23312163--23312204	11	3.9	11	84	15	61	0	16	0	83	0.65
23312163--23312207	16	2.9	16	87	12	67	0	15	0	84	0.62
23312160--23312218	26	2.3	26	82	5	75	6	11	0	81	0.87
23312299--23312331	14	2.3	15	89	5	50	24	33	15	27	1.95
23317348--23317423	27	2.7	26	76	15	73	67	0	7	25	1.18
23317367--23317424	12	4.5	12	77	14	62	67	0	6	25	1.16
23317363--23317424	4	15.8	4	73	9	56	67	0	6	25	1.14
23318296--23318336	18	2.2	18	86	4	55	73	4	17	4	1.19
23321731--23321760	15	1.9	16	93	6	53	60	0	6	33	1.23
23321849--23321886	16	2.4	16	86	0	58	50	0	7	42	1.31
23321919--23321967	24	2.0	24	84	7	64	42	2	0	55	1.11
23321933--23321990	23	2.5	23	81	10	57	37	1	1	58	1.18
23321937--23321999	19	3.3	19	78	12	67	38	3	3	55	1.32
23321969--23322007	19	2.1	19	85	0	51	38	5	5	51	1.46
23337815--23337866	11	4.7	11	79	9	61	23	25	1	50	1.60
23337808--23337866	22	2.6	22	84	10	75	22	27	1	49	1.59
23338924--23338949	7	3.7	7	100	0	52	26	0	15	57	1.38
23339600--23339639	18	2.2	18	90	0	62	20	30	5	45	1.72
23340179--23340685	21	23.1	22	79	10	479	42	30	0	25	1.59
23340179--23340685	43	11.6	43	78	11	512	42	30	0	25	1.59
23340201--23340463	72	3.9	71	77	15	231	44	29	0	25	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23340275--23340648	65	5.8	65	83	5	408	41	31	0	25	1.61
23340610--23340667	29	2.0	29	100	0	116	41	31	0	27	1.56
23340707--23340992	125	2.2	128	84	6	368	31	23	13	31	1.93
23342344--23342370	6	4.5	6	100	0	54	0	14	0	85	0.61
23347277--23347315	19	2.1	19	90	0	60	46	7	10	35	1.67
23349436--23349507	34	2.1	34	97	0	135	45	12	20	20	1.83
23354860--23354891	3	10.7	3	100	0	64	0	31	0	68	0.90
23357394--23357420	14	1.9	14	100	0	54	0	18	0	81	0.69
23358018--23358047	15	2.0	15	100	0	60	13	46	0	40	1.43
23371938--23372002	22	2.9	22	88	4	58	30	29	0	40	1.57
23371947--23372002	22	2.5	22	97	2	103	28	30	0	41	1.57
23371955--23372054	52	1.9	52	91	0	164	30	32	0	38	1.58
23372007--23372059	22	2.4	22	84	6	72	33	32	0	33	1.58
23372091--23372148	29	2.0	28	90	9	91	37	0	1	60	1.07
23372106--23372149	20	2.3	20	84	7	56	36	0	0	63	0.95
23372095--23372155	28	2.1	29	85	8	81	37	0	1	60	1.07
23372094--23372155	29	2.1	29	85	11	83	37	0	1	61	1.06
23372246--23372279	15	2.3	15	90	5	52	26	0	5	67	1.13
23373237--23373261	7	3.6	7	100	0	50	28	0	12	60	1.32
23374110--23374165	24	2.3	24	96	0	103	26	35	17	19	1.94
23375735--23376015	124	2.3	124	89	4	424	32	22	15	29	1.95
23376779--23376819	14	2.9	15	78	7	50	36	7	14	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23376803--23376842	20	2.0	20	90	0	62	32	10	7	50	1.64
23376941--23376979	20	2.0	20	94	0	69	48	2	0	48	1.15
23377578--23377631	19	2.8	19	97	0	99	33	9	14	42	1.78
23386368--23386483	61	1.9	59	86	5	162	49	4	3	43	1.39
23386468--23386518	25	2.0	25	85	7	68	50	3	1	43	1.31
23389622--23389923	155	2.0	154	88	4	448	42	11	4	41	1.61
23390102--23390137	19	1.9	18	88	5	54	80	0	13	5	0.88
23395212--23395452	43	5.7	41	77	10	227	24	15	25	34	1.95
23395221--23395460	42	5.7	43	78	10	228	22	17	25	34	1.96
23395221--23395460	85	2.8	84	89	1	345	22	17	25	34	1.96
23400998--23401039	22	2.0	21	81	13	50	38	7	4	50	1.51
23401759--23401785	11	2.5	11	100	0	54	40	7	0	51	1.30
23401746--23401881	40	3.5	39	84	8	179	35	2	0	61	1.11
23403601--23403653	27	1.9	28	88	3	81	52	1	0	45	1.11
23407952--23408209	129	2.0	129	97	0	489	41	17	17	23	1.89
23415506--23415556	18	2.8	18	75	0	66	13	43	3	39	1.63
23418345--23418425	15	5.3	15	68	23	53	41	18	9	29	1.83
23418361--23418400	20	2.0	20	90	0	62	50	12	10	27	1.72
23418349--23418415	34	1.9	35	87	3	100	46	14	8	29	1.76
23418439--23418485	18	2.6	18	96	0	85	40	6	10	42	1.65
23418615--23418664	25	2.0	25	88	0	73	6	36	2	56	1.36
23423740--23423787	23	2.0	23	84	8	60	43	16	0	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23427097--23427134	19	2.0	19	85	10	51	15	23	42	18	1.89
23427345--23427483	27	5.2	27	79	3	138	48	20	13	17	1.80
23427344--23427486	53	2.7	54	76	3	155	48	20	13	16	1.80
23427730--23427860	58	2.3	58	100	0	262	10	11	42	35	1.76
23427880--23427944	28	2.3	28	97	0	121	21	29	23	26	1.99
23445880--23446083	44	4.7	42	75	8	169	25	19	24	31	1.98
23446434--23446490	24	2.4	24	93	0	96	29	26	12	31	1.92
23451778--23451913	44	3.1	45	87	5	188	25	19	10	44	1.82
23453932--23454046	45	2.6	45	76	5	117	23	23	16	36	1.94
23458553--23458607	25	2.2	25	100	0	110	29	16	10	43	1.82
23460250--23460492	50	4.9	50	88	1	308	27	20	30	22	1.98
23463410--23463443	10	3.4	10	95	0	59	2	0	47	50	1.16
23464849--23464948	27	3.7	27	82	2	112	46	21	16	17	1.85
23464871--23464967	27	3.6	27	75	10	90	43	18	20	17	1.88
23464931--23464997	27	2.5	27	82	4	73	35	16	22	25	1.94
23465157--23465258	26	3.9	26	84	0	123	17	20	24	37	1.94
23475223--23475261	20	2.0	20	85	10	53	38	12	10	38	1.78
23482062--23482146	42	2.0	42	100	0	170	21	23	11	43	1.85
23486567--23486613	24	1.9	24	86	4	67	36	0	38	25	1.56
23487432--23487473	20	2.2	19	86	4	57	16	26	40	16	1.90
23487723--23488079	27	13.3	27	81	1	396	43	21	16	19	1.88
23491262--23491364	51	2.0	51	94	0	179	27	24	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23510605--23510659	27	2.0	27	100	0	110	27	14	18	40	1.89
23515978--23516035	17	3.2	16	79	16	53	50	0	25	24	1.50
23516286--23516370	30	2.8	30	96	0	152	35	0	43	21	1.53
23516419--23516455	18	2.1	18	94	0	65	29	5	13	51	1.63
23519381--23519427	22	2.1	22	84	7	60	36	17	23	23	1.95
23522578--23522609	2	16.0	2	100	0	64	50	0	0	50	1.00
23525016--23525119	37	2.8	37	89	1	165	42	25	13	19	1.87
23531226--23531259	18	1.9	18	88	5	52	32	20	11	35	1.89
23534241--23534298	27	2.2	26	84	3	71	51	8	10	29	1.65
23534241--23534305	27	2.4	26	82	5	67	50	9	10	29	1.68

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