genome.fa.s1.2.7.7.80.10.50.1000.185.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  185  of  187  ( 22383 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)
55417683--55417766	43	2.0	43	88	4	125	29	17	22	29	1.97
55419326--55419438	37	3.3	36	71	19	98	56	4	1	37	1.30
55422005--55422062	20	2.8	21	78	5	64	37	17	20	24	1.93
55425614--55425647	16	2.1	16	94	0	59	79	5	5	8	1.05
55429745--55429858	43	2.6	44	78	8	117	25	34	18	21	1.96
55431533--55431569	19	2.0	19	89	5	58	13	16	2	67	1.34
55437453--55437516	33	1.9	33	96	0	119	37	15	17	29	1.91
55443444--55443523	42	1.9	42	84	0	106	21	32	25	21	1.98
55450703--55450741	20	1.9	21	84	5	53	15	2	35	46	1.60
55450825--55450871	22	2.2	22	84	3	60	21	2	29	46	1.63
55450875--55450995	34	3.4	34	77	12	111	26	1	36	35	1.67
55451039--55451092	22	2.5	22	81	3	65	20	7	31	40	1.80
55451170--55451251	28	3.0	28	79	12	80	17	2	29	51	1.58
55465664--55465775	33	3.2	36	80	11	121	33	26	10	28	1.90
55465974--55466183	41	5.1	41	93	0	357	22	27	20	29	1.99
55466415--55466455	17	2.5	17	88	7	59	43	14	2	39	1.59
55467256--55467419	44	3.7	44	80	6	190	29	23	15	31	1.95
55474861--55474894	15	2.3	15	100	0	68	44	17	14	23	1.86
55476336--55476409	23	3.2	23	83	7	105	31	25	21	21	1.98
55481608--55481639	14	2.2	15	94	5	57	71	6	15	6	1.26
55481577--55481678	18	6.1	18	74	13	67	62	12	13	10	1.54
55482969--55483552	124	4.7	124	82	1	634	26	22	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55484312--55484359	14	3.4	14	88	0	69	47	22	4	25	1.69
55484727--55484830	40	2.6	39	81	6	109	25	19	25	29	1.98
55485808--55485847	19	2.1	19	100	0	80	27	10	17	45	1.80
55486105--55486150	24	1.9	24	95	0	83	23	21	17	36	1.94
55487552--55487682	70	1.9	70	95	0	235	23	13	28	34	1.93
55491755--55491798	24	1.9	23	81	9	54	59	2	4	34	1.30
55493245--55493693	45	10.1	45	68	9	152	27	22	18	31	1.97
55493245--55493460	90	2.4	90	82	3	256	25	22	18	33	1.97
55498276--55498317	19	2.3	18	92	8	75	14	11	7	66	1.43
55498394--55498536	72	2.0	71	93	1	241	27	20	17	34	1.95
55498984--55499024	20	2.0	20	100	0	82	34	19	14	31	1.92
55502946--55503046	31	3.3	31	95	0	184	27	22	15	33	1.95
55510098--55511032	42	22.0	42	78	5	819	17	34	31	15	1.91
55510104--55511034	85	11.0	85	82	3	1013	17	34	31	15	1.92
55511040--55511106	24	2.8	24	97	0	125	17	35	41	4	1.70
55511040--55511104	13	5.3	13	69	14	57	16	36	41	4	1.70
55511430--55511633	42	4.8	42	74	10	182	21	33	25	18	1.96
55511415--55511633	84	2.6	85	81	9	243	21	32	26	18	1.97
55519501--55520445	43	22.2	42	79	5	796	17	35	31	15	1.91
55519521--55520458	85	11.0	84	84	3	1051	18	34	32	15	1.92
55519515--55520458	128	7.4	125	79	6	885	18	34	31	15	1.91
55520475--55520539	11	5.5	11	72	13	58	15	40	41	3	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55520464--55520541	24	3.2	24	96	0	138	16	37	41	5	1.71
55520486--55520528	13	3.5	13	75	12	54	13	37	44	4	1.65
55520751--55521086	42	7.9	42	77	10	319	20	33	27	17	1.96
55528957--55529113	42	3.7	42	86	4	199	19	38	29	12	1.88
55528957--55529113	85	1.8	85	86	2	226	19	38	29	12	1.88
55529184--55529906	43	17.0	43	79	5	752	17	34	31	16	1.93
55529185--55529906	85	8.5	85	84	3	903	17	34	31	16	1.92
55529184--55529900	128	5.6	127	79	5	687	17	34	31	16	1.93
55529912--55529965	24	2.2	24	93	0	90	16	37	40	5	1.72
55530184--55530367	84	2.2	84	83	4	219	20	34	28	17	1.95
55537872--55537913	22	1.9	22	100	0	84	35	14	26	23	1.93
55538278--55539173	43	21.0	42	78	5	773	17	34	32	15	1.92
55538261--55539175	85	10.7	84	82	4	944	17	34	31	15	1.92
55538284--55539175	128	7.0	127	80	4	981	17	34	32	15	1.92
55539192--55539256	11	5.5	11	72	13	58	15	40	41	3	1.63
55539181--55539258	24	3.2	24	96	0	138	16	37	41	5	1.71
55539203--55539245	13	3.5	13	75	12	54	13	37	44	4	1.65
55539467--55539567	42	2.4	42	91	3	159	18	34	27	18	1.95
55543085--55543173	28	3.2	27	80	10	99	21	26	20	31	1.98
55545421--55545467	22	2.1	22	88	0	67	31	23	12	31	1.92
55548152--55548183	15	2.1	15	100	0	64	34	15	25	25	1.95
55550501--55550550	22	2.3	22	89	0	73	30	16	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55550863--55551762	43	21.2	42	81	5	760	17	34	31	16	1.92
55550863--55551775	85	10.7	84	80	5	960	17	34	31	15	1.92
55551781--55551857	24	3.2	24	92	3	129	16	36	41	5	1.71
55551920--55551968	25	2.0	25	96	4	91	42	28	12	16	1.84
55552061--55552393	42	7.9	42	76	11	301	21	34	26	18	1.96
55552114--55552339	83	2.7	86	82	8	295	21	34	26	17	1.95
55553923--55554071	22	6.8	22	90	0	217	26	26	14	31	1.95
55556482--55556544	22	2.9	22	82	0	81	26	15	26	30	1.96
55560256--55561141	43	20.8	42	85	2	1081	20	36	27	15	1.93
55560256--55561141	85	10.4	85	86	1	1150	20	36	27	15	1.93
55564650--55564816	42	3.9	42	84	2	199	19	31	29	19	1.96
55564657--55564814	85	1.8	86	86	1	228	20	32	29	18	1.96
55565293--55565453	43	3.8	43	76	11	127	16	34	32	16	1.91
55570984--55571038	22	2.5	22	90	0	83	30	14	29	25	1.95
55572885--55573821	43	22.0	42	80	5	927	17	34	32	15	1.92
55572885--55573821	85	11.0	84	82	4	1013	17	34	32	15	1.92
55573838--55573902	11	5.5	11	72	13	58	15	40	41	3	1.63
55573827--55573904	24	3.2	24	96	0	138	16	37	41	5	1.71
55573849--55573891	13	3.5	13	75	12	54	13	37	44	4	1.65
55574177--55574242	22	3.0	22	79	0	87	30	25	13	30	1.94
55574240--55574445	42	4.9	42	73	10	170	21	33	25	18	1.96
55576046--55576117	22	3.3	22	94	0	117	30	16	27	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55578736--55578778	22	2.0	22	100	0	86	37	13	25	23	1.92
55579004--55579046	22	2.0	22	100	0	86	37	13	25	23	1.92
55580467--55580538	22	3.3	22	94	0	117	30	16	27	25	1.97
55582350--55583244	43	21.0	41	79	5	755	17	34	31	15	1.92
55582333--55583246	85	10.7	84	82	4	994	18	34	31	15	1.92
55583263--55583327	11	5.5	11	72	13	58	15	40	41	3	1.63
55583252--55583329	24	3.2	24	96	0	138	16	37	41	5	1.71
55583274--55583316	13	3.5	13	75	12	54	13	37	44	4	1.65
55583539--55583874	42	7.9	42	77	10	319	20	33	27	17	1.95
55584960--55585031	22	3.3	22	94	0	117	30	16	27	25	1.97
55591771--55592710	43	22.0	42	77	5	782	17	35	31	15	1.92
55591774--55592712	85	11.0	84	82	4	956	17	34	31	15	1.92
55591768--55592712	128	7.4	125	79	5	874	17	34	31	15	1.92
55591777--55592699	299	3.1	299	85	5	1129	17	34	31	15	1.92
55592729--55592793	11	5.5	11	72	13	58	15	40	41	3	1.63
55592718--55592795	24	3.2	24	96	0	138	16	37	41	5	1.71
55592740--55592782	13	3.5	13	75	12	54	13	37	44	4	1.65
55593005--55593340	42	7.9	42	77	10	319	20	33	27	17	1.96
55594532--55594590	23	2.6	22	82	10	75	44	20	3	32	1.68
55611582--55612520	43	22.0	42	78	5	832	17	34	32	15	1.91
55611585--55612522	85	11.0	83	82	4	944	17	34	32	15	1.92
55611588--55612522	128	7.3	127	80	5	972	17	34	32	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55612539--55612603	11	5.5	11	72	13	58	15	40	41	3	1.63
55612528--55612605	24	3.2	24	96	0	138	16	37	41	5	1.71
55612550--55612592	13	3.5	13	75	12	54	13	37	44	4	1.65
55612815--55613150	42	7.9	42	77	10	319	20	33	27	17	1.96
55621067--55622003	42	22.0	42	80	5	848	18	34	32	15	1.92
55621070--55622005	85	11.0	84	81	4	986	18	34	32	15	1.92
55622022--55622086	11	5.5	11	72	13	58	15	40	41	3	1.63
55622011--55622088	24	3.2	24	96	0	138	16	37	41	5	1.71
55622033--55622075	13	3.5	13	75	12	54	13	37	44	4	1.65
55622296--55622631	42	7.9	42	77	10	310	20	33	27	17	1.96

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