genome.fa.s5.2.7.7.80.10.50.1000.185.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  185  of  208  ( 24913 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)
56570474--56570502	13	2.1	14	93	6	51	27	0	13	58	1.36
56575093--56575131	19	2.2	17	86	9	51	38	0	7	53	1.30
56587237--56587280	16	2.8	16	86	10	63	43	0	0	56	0.99
56587768--56588372	110	5.4	110	95	1	998	32	20	15	31	1.94
56587768--56588372	218	2.7	220	92	2	1007	32	20	15	31	1.94
56588485--56588527	17	2.5	17	85	7	52	74	4	4	16	1.16
56588855--56588894	3	13.0	3	94	5	71	65	0	2	32	1.06
56589997--56590035	20	2.0	20	90	10	62	10	20	48	20	1.78
56591997--56592163	58	2.9	58	78	1	156	32	23	23	20	1.98
56592304--56592625	100	3.2	98	74	6	272	33	14	26	25	1.95
56592301--56592702	50	8.1	49	72	6	191	34	16	25	23	1.95
56594370--56594435	26	2.6	25	79	11	71	42	16	0	40	1.48
56600136--56600695	89	6.3	89	89	2	772	26	23	18	31	1.97
56605449--56605489	20	2.0	21	85	4	57	29	26	7	36	1.83
56609482--56609730	50	4.8	50	85	5	311	20	30	22	26	1.98
56609481--56609730	100	2.4	104	88	5	355	20	30	22	26	1.99
56609825--56609856	13	2.5	13	94	0	55	56	12	0	31	1.37
56617675--56617751	29	2.6	29	79	4	82	49	15	12	22	1.78
56624229--56624337	10	11.0	10	71	4	60	60	0	2	35	1.17
56624228--56624334	31	3.5	30	76	7	92	61	0	2	34	1.17
56626305--56626344	17	2.4	16	84	8	53	27	2	5	65	1.27
56631432--56631590	61	2.8	59	81	11	188	43	17	7	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56631901--56631932	2	16.0	2	100	0	64	50	0	0	50	1.00
56632217--56632254	17	2.3	17	90	4	60	60	7	5	26	1.46
56635681--56635705	11	2.3	11	100	0	50	36	28	20	16	1.93
56637405--56637434	16	1.9	15	93	6	51	56	0	10	33	1.32
56644198--56644234	19	1.9	19	88	0	56	51	8	29	10	1.65
56648781--56648896	41	3.0	40	71	10	112	25	14	23	37	1.93
56649717--56649796	41	1.9	42	85	7	110	22	25	33	18	1.97
56651354--56651411	23	2.7	22	84	10	75	37	0	0	62	0.96
56651355--56651417	10	6.1	10	72	24	51	34	0	0	65	0.93
56652403--56652442	20	2.0	20	85	9	55	40	2	15	42	1.60
56664273--56664405	58	2.3	56	81	8	144	48	5	20	25	1.70
56666082--56666240	21	7.6	21	71	8	117	44	16	23	16	1.86
56666085--56666231	42	3.5	41	84	5	170	43	15	23	17	1.87
56666085--56666241	84	1.9	84	82	5	201	44	15	22	16	1.86
56667415--56667447	12	2.8	12	100	0	66	57	0	0	42	0.98
56670095--56670207	45	2.3	47	78	18	124	39	19	20	20	1.92
56670114--56670202	45	2.0	45	91	4	144	40	21	17	20	1.92
56670112--56670228	45	2.8	42	81	8	116	38	22	18	20	1.93
56675634--56675658	13	1.9	13	100	0	50	48	8	0	44	1.32
56675755--56675859	30	3.5	30	77	3	88	63	0	1	33	1.11
56675755--56675859	40	2.7	39	82	10	117	63	0	1	33	1.11
56675785--56675859	9	7.7	9	73	16	60	65	0	2	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56675753--56675859	19	5.4	20	73	12	96	62	0	1	34	1.12
56675786--56675863	10	7.8	10	77	9	70	65	0	2	32	1.06
56677265--56677291	13	2.1	13	100	0	54	48	7	0	44	1.31
56683194--56683327	50	2.7	50	82	3	162	22	17	27	32	1.97
56686933--56686958	9	2.9	9	100	0	52	57	0	19	23	1.40
56686974--56687005	12	2.7	12	100	0	64	53	6	6	34	1.51
56688767--56689171	45	9.0	45	86	2	483	29	24	17	28	1.97
56690615--56690653	17	2.3	17	95	0	69	17	35	10	35	1.84
56701424--56701463	12	3.3	12	89	0	62	65	0	5	30	1.14
56717227--56717787	278	2.0	278	99	0	1104	30	14	11	43	1.81
56742431--56742487	29	1.9	29	92	3	96	31	29	19	19	1.96
56744774--56744810	6	6.3	6	96	3	67	0	18	13	67	1.23
56749557--56749626	31	2.3	31	80	7	81	45	7	8	38	1.62
56750553--56750628	16	4.7	16	77	3	80	55	0	5	39	1.23
56750657--56750705	24	2.0	24	88	0	71	48	2	12	36	1.52
56750657--56750715	24	2.8	20	72	18	55	47	1	11	38	1.50
56750664--56750717	24	2.0	28	83	16	71	51	0	11	37	1.37
56750788--56750851	3	21.3	3	100	0	128	67	0	0	32	0.91
56756659--56756689	12	2.6	12	94	0	53	29	0	12	58	1.35
56757816--56757846	9	3.4	9	90	0	53	25	12	22	38	1.90
56758140--56758199	30	2.0	31	86	3	86	23	38	0	38	1.55
56769747--56769936	26	7.5	26	71	11	117	40	20	20	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56769754--56769869	25	4.7	25	69	18	82	39	21	19	18	1.92
56769936--56770070	65	2.1	65	91	0	216	37	21	18	22	1.95
56773358--56773395	15	2.6	15	88	12	53	39	0	15	44	1.47
56784925--56784950	3	8.7	3	100	0	52	69	0	0	30	0.89
56788635--56788706	35	2.1	35	100	0	144	27	30	20	20	1.98
56789483--56789573	45	2.0	45	100	0	182	36	10	19	32	1.87
56792301--56792476	50	3.5	50	76	6	135	28	23	26	21	1.99
56794423--56794531	44	2.4	45	81	1	130	30	22	19	28	1.98
56794663--56794806	44	3.2	44	74	1	144	34	18	18	27	1.95
56794601--56794818	89	2.4	89	77	6	235	33	18	19	28	1.96
56794752--56794900	44	3.4	44	73	3	129	35	17	19	27	1.94
56794987--56795086	44	2.3	44	82	0	110	30	22	21	27	1.98
56801212--56801313	29	3.4	31	75	6	93	48	5	13	32	1.67
56801212--56801357	30	4.7	29	72	12	78	44	6	16	32	1.72
56806235--56806375	40	3.6	40	72	10	110	33	20	15	30	1.94
56807294--56807370	5	15.4	5	100	0	154	59	0	0	40	0.97
56819634--56819673	7	5.7	7	88	11	64	12	0	0	87	0.54
56823156--56823300	72	2.0	72	100	0	290	30	15	16	37	1.89
56828549--56828647	50	2.0	50	93	0	171	27	30	7	35	1.83
56834805--56834834	14	2.1	14	100	0	60	40	0	0	60	0.97
56834799--56834843	17	2.9	17	81	18	62	37	0	0	62	0.96
56837834--56837886	24	2.5	21	82	14	56	47	15	1	35	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56838359--56838402	18	2.4	18	96	0	79	13	2	43	40	1.57
56846674--56846717	22	2.0	22	90	0	70	13	18	29	38	1.89
56846785--56847038	83	3.0	83	89	3	384	32	22	21	23	1.98
56846789--56847038	42	6.0	41	89	1	356	32	22	21	23	1.98
56846790--56847036	125	2.0	126	91	2	408	32	23	21	22	1.98
56847440--56847490	21	2.4	21	83	0	66	3	45	17	33	1.67
56851020--56851302	9	31.4	9	67	19	110	35	1	16	46	1.57
56851073--56851137	25	2.8	25	77	15	77	36	0	18	44	1.50
56851134--56851234	29	3.6	29	78	15	86	35	0	15	48	1.46
56851156--56851296	34	4.0	34	76	9	131	32	0	18	48	1.53
56851376--56851419	14	3.1	15	81	18	58	38	2	6	52	1.41
56851306--56851476	84	2.0	84	98	0	333	33	7	4	53	1.50
56854169--56854210	22	2.0	21	85	4	57	50	26	4	19	1.67
56854258--56854293	14	2.6	14	95	0	63	38	44	0	16	1.48
56853964--56854317	150	2.3	153	78	7	403	44	31	3	20	1.67
56854729--56855159	72	6.0	72	82	3	453	25	21	20	33	1.97
56854732--56855144	143	2.9	144	82	3	467	26	21	20	32	1.98
56854736--56855132	215	1.8	214	83	4	521	26	21	20	31	1.98
56855224--56855314	40	2.3	39	81	9	103	20	21	19	37	1.95
56855236--56855342	40	2.7	39	82	5	108	23	19	18	38	1.93
56856709--56856755	15	3.4	15	68	31	50	68	0	6	25	1.13
56856706--56856759	26	2.1	26	96	0	99	72	0	5	22	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56867856--56867882	14	1.9	14	100	0	54	74	0	25	0	0.83
56870666--56870706	18	2.3	19	87	8	59	14	2	9	73	1.19
56874271--56874310	16	2.4	16	83	4	53	60	0	0	40	0.97
56874260--56874317	29	2.0	29	83	12	75	56	0	0	43	0.99
56874361--56874401	15	2.6	16	78	14	50	70	0	0	29	0.87
56874360--56874446	35	2.3	40	80	13	112	64	1	1	33	1.09
56874538--56874593	26	2.2	26	84	12	71	50	0	1	48	1.11
56880728--56880761	10	3.4	10	87	0	50	47	0	5	47	1.26
56880709--56880762	15	3.7	15	72	18	51	50	0	3	46	1.19
56880906--56880966	20	3.3	18	76	13	61	49	4	3	42	1.40

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