genome.fa.s1.2.7.7.80.10.50.1000.176.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  176  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)
52733278--52733306	15	1.9	15	100	0	58	51	0	13	34	1.42
52733407--52733439	12	2.7	13	86	13	52	72	0	0	27	0.85
52734133--52734165	17	1.9	17	93	0	57	21	27	30	21	1.98
52734341--52734386	21	2.2	20	85	11	58	41	8	15	34	1.78
52734608--52734640	16	2.0	16	94	5	57	78	0	15	6	0.93
52735856--52735893	19	2.0	19	94	0	67	50	21	0	28	1.49
52735920--52736010	38	2.3	41	88	7	143	40	1	5	52	1.32
52742746--52742774	15	1.9	15	100	0	58	51	0	13	34	1.42
52742884--52742950	29	2.4	27	73	7	62	62	4	4	28	1.34
52746787--52746813	11	2.5	11	100	0	54	37	0	0	62	0.95
52748301--52748339	18	2.2	17	86	13	53	33	0	20	46	1.51
52760339--52760592	129	2.0	130	95	0	456	23	19	12	44	1.85
52765020--52765054	12	2.9	12	86	0	52	22	8	2	65	1.34
52765047--52765095	7	6.6	7	80	13	53	18	2	2	77	0.96
52765047--52765095	15	3.3	15	82	5	55	18	2	2	77	0.96
52765047--52765092	22	2.1	22	83	0	56	17	2	2	78	0.96
52771799--52771853	26	2.1	26	89	0	83	21	20	27	30	1.98
52775013--52775177	13	12.5	13	72	7	118	46	3	10	40	1.56
52775004--52775153	53	2.8	53	94	0	255	45	3	10	40	1.55
52775066--52775204	66	2.1	66	82	0	161	44	2	10	41	1.54
52776851--52776948	40	2.5	40	94	0	169	24	26	26	22	2.00
52784011--52784065	16	3.7	15	73	14	51	30	3	16	49	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52784004--52784065	29	2.1	29	90	0	97	32	3	16	48	1.62
52785592--52785675	30	2.8	29	79	13	82	54	2	2	40	1.26
52785832--52786112	66	4.3	66	84	3	388	43	3	25	27	1.71
52785832--52786112	131	2.1	132	86	4	406	43	3	25	27	1.71
52797518--52797553	5	7.2	5	100	0	72	38	19	19	22	1.93
52800799--52800861	31	2.1	30	84	3	81	41	1	1	55	1.19
52801125--52801172	25	2.0	24	84	12	62	35	0	0	64	0.94
52807288--52807335	13	3.7	13	91	5	71	22	8	27	41	1.82
52812924--52812952	15	1.9	15	100	0	58	20	6	31	41	1.79
52813586--52813654	19	3.7	18	76	7	57	50	26	1	21	1.57
52813586--52813653	26	2.6	26	77	9	68	51	25	1	22	1.56
52813769--52814602	22	39.5	21	68	15	206	47	24	0	26	1.59
52813778--52814714	7	129.6	7	69	12	310	47	24	0	27	1.58
52813825--52814013	15	13.0	15	70	12	51	47	23	1	27	1.58
52814043--52814183	57	2.5	57	91	3	221	48	21	0	29	1.51
52813913--52814572	36	18.5	36	68	15	130	46	25	0	26	1.59
52814057--52814270	57	3.6	57	78	14	200	47	24	0	27	1.55
52813856--52814566	29	24.9	28	68	16	173	47	25	0	26	1.58
52814375--52814580	72	2.9	72	86	2	263	47	27	0	25	1.56
52814532--52814691	58	2.7	58	80	5	153	47	20	0	31	1.51
52814482--52814645	51	3.2	50	76	13	149	46	24	0	28	1.53
52814644--52814713	22	3.1	22	93	2	113	50	18	0	31	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52814651--52814720	23	3.1	22	87	6	88	51	18	0	30	1.47
52814751--52814860	45	2.6	45	80	9	133	34	5	28	31	1.80
52815005--52815039	18	2.0	17	88	5	52	54	0	0	45	0.99
52815123--52815159	16	2.2	17	86	13	51	54	0	2	43	1.14
52815081--52815266	59	3.1	58	70	19	175	50	3	2	43	1.32
52814985--52815272	120	2.4	120	91	2	479	48	5	1	44	1.35
52815020--52815220	61	3.3	60	69	16	155	47	6	2	43	1.42
52818195--52818273	7	11.0	7	71	10	61	48	25	0	26	1.52
52818215--52818270	15	3.8	15	88	2	78	53	17	0	28	1.44
52818368--52818419	14	3.8	14	84	2	70	51	19	0	28	1.47
52818368--52818428	14	4.4	14	81	4	61	52	19	0	27	1.46
52818416--52818492	15	5.3	14	73	13	57	57	23	1	18	1.48
52818349--52818576	44	5.4	43	75	10	168	52	24	0	22	1.50
52818349--52818591	21	11.5	21	69	13	99	52	24	0	23	1.51
52818512--52818621	36	3.1	36	76	10	109	53	21	0	24	1.46
52818572--52818620	15	3.3	15	83	11	73	51	20	0	28	1.48
52818640--52818705	27	2.4	27	84	0	87	48	25	1	24	1.60
52822245--52822269	8	3.1	8	100	0	50	40	0	24	36	1.55
52827864--52828057	103	1.9	103	89	2	300	40	20	17	22	1.91
52834163--52834209	18	2.7	17	80	12	51	65	0	2	31	1.04
52836128--52836168	22	1.9	21	85	5	55	48	0	4	46	1.23
52838464--52838538	39	1.9	39	86	5	107	37	5	9	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52839624--52839720	48	2.0	49	89	2	151	18	16	23	41	1.90
52844736--52844832	49	2.0	48	87	2	140	19	16	22	41	1.90
52845438--52845471	11	3.0	11	95	4	59	44	2	0	52	1.16
52848468--52848535	27	2.5	27	75	0	73	19	20	19	41	1.91
52849270--52849366	20	4.8	20	96	2	169	36	9	24	29	1.87
52857608--52857634	2	13.5	2	100	0	54	48	0	0	51	1.00
52866491--52866528	12	2.9	13	84	11	51	73	2	0	23	0.95
52867601--52867649	4	13.0	4	76	20	52	73	2	0	24	0.94
52867598--52867638	7	6.0	7	97	2	75	73	0	0	26	0.84
52867598--52867649	21	2.5	20	88	11	79	73	1	0	25	0.94
52867907--52867951	22	2.0	22	86	4	63	37	17	6	37	1.76
52867907--52867977	21	3.4	20	82	11	72	39	15	7	38	1.75
52871473--52871531	26	2.3	26	84	0	73	42	15	11	30	1.83
52874416--52874459	23	1.9	23	90	0	70	29	27	6	36	1.83
52877265--52877313	23	2.1	24	88	3	73	48	2	18	30	1.59
52877503--52877542	21	1.9	21	84	0	53	65	7	5	22	1.38
52882038--52882185	57	2.5	59	85	9	194	31	20	25	22	1.98
52882308--52882438	67	2.0	67	93	0	226	21	16	33	28	1.95
52884051--52884198	49	3.0	49	88	2	215	25	14	29	31	1.94
52885526--52885555	15	2.0	15	93	0	51	56	6	0	36	1.26
52885611--52885637	2	13.5	2	100	0	54	51	0	0	48	1.00
52885771--52885939	41	4.1	41	91	0	275	23	27	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52885777--52885939	82	2.0	82	98	0	317	23	28	20	28	1.99
52886167--52886213	15	2.9	16	84	6	60	48	17	0	34	1.47
52886167--52886207	17	2.6	16	92	7	66	46	14	0	39	1.45
52886160--52886207	17	2.6	18	80	12	62	45	16	0	37	1.48
52889973--52890014	16	2.5	17	88	7	68	85	0	4	9	0.72
52889980--52890014	9	4.0	9	88	7	54	88	0	2	8	0.61
52893306--52893398	22	4.3	22	87	1	116	29	15	26	29	1.96
52894380--52894434	19	2.8	20	89	10	78	36	0	0	63	0.95
52895770--52895825	28	1.9	30	85	7	80	60	7	0	32	1.24
52898592--52898706	14	8.2	14	71	7	54	29	13	23	33	1.92
52898676--52898768	28	3.3	28	76	0	69	36	12	20	30	1.90
52898735--52898768	14	2.4	14	90	0	50	41	14	14	29	1.86
52898625--52898762	70	2.0	70	82	0	168	33	13	21	31	1.92
52901048--52901098	20	2.6	19	88	11	77	35	9	0	54	1.33
52904802--52904846	2	22.5	2	100	0	90	51	0	0	48	1.00
52906440--52906511	26	2.8	25	77	6	72	33	13	12	40	1.83
52906660--52906693	17	1.9	18	88	5	52	11	26	0	61	1.30
52909144--52909270	64	2.0	64	93	0	218	33	17	15	33	1.92
52911690--52911823	49	2.7	49	83	2	144	17	14	22	44	1.86
52918070--52918145	26	2.9	25	78	7	80	31	15	9	43	1.79
52922493--52922530	17	2.2	17	90	0	58	47	5	0	47	1.24
52938524--52938630	27	4.0	27	85	4	110	32	18	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52938688--52938746	24	2.5	24	86	5	84	20	6	25	47	1.74
52938810--52938874	27	2.4	27	83	14	82	20	24	23	32	1.98
52938828--52938880	27	2.0	27	81	7	63	22	26	20	30	1.98
52938949--52939081	32	4.2	32	73	7	108	18	23	22	36	1.95
52938918--52939081	64	2.6	64	80	3	152	20	23	20	35	1.96
52938915--52939103	96	2.0	96	81	0	225	21	22	20	35	1.96
52939338--52939391	28	1.9	28	92	0	90	16	27	25	29	1.97
52946890--52947036	55	2.6	56	80	4	161	28	25	17	29	1.97
52947013--52947304	54	5.4	53	84	6	374	29	15	20	34	1.94
52947013--52947301	160	1.8	160	90	3	465	28	15	21	34	1.94

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