genome.fa.s1.2.7.7.80.10.50.1000.153.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  153  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)
45501000--45501105	49	2.2	48	83	8	133	25	32	20	21	1.98
45504771--45504807	5	7.8	5	88	11	60	16	0	0	83	0.64
45508253--45508326	34	2.2	34	97	0	139	43	20	20	16	1.88
45517839--45517868	13	2.3	13	94	0	51	33	3	13	50	1.58
45517963--45518305	50	6.8	50	87	0	461	25	22	30	21	1.99
45525609--45525900	50	5.8	50	86	3	390	26	22	30	21	1.99
45546152--45546203	24	2.2	24	85	0	68	38	1	7	51	1.42
45550488--45550543	15	3.1	19	70	21	57	50	0	28	21	1.49
45550622--45550681	30	2.0	30	83	9	77	43	0	38	18	1.50
45550967--45550997	9	3.4	9	90	0	53	38	22	12	25	1.90
45551481--45551539	15	3.6	16	78	14	57	27	3	3	66	1.24
45551482--45551539	17	3.5	16	80	13	55	27	3	3	65	1.25
45551494--45551538	18	2.5	17	86	13	56	33	2	2	62	1.20
45552286--45552323	20	1.9	20	88	0	58	28	15	5	50	1.66
45568954--45569004	5	10.2	5	83	8	68	41	17	0	41	1.50
45570646--45570679	2	17.0	2	100	0	68	50	0	0	50	1.00
45573772--45573816	16	2.8	16	77	9	56	55	0	0	44	0.99
45580013--45580582	44	12.6	44	70	16	203	31	16	21	30	1.96
45580021--45580307	89	3.2	88	73	14	287	29	15	25	30	1.96
45580056--45580399	45	7.6	47	72	18	180	30	16	22	31	1.95
45580151--45580433	41	6.5	41	71	15	183	30	17	20	31	1.96
45579999--45580400	181	2.2	181	93	0	669	30	16	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45580056--45580354	96	3.2	94	75	12	341	29	15	23	31	1.95
45580416--45580590	49	3.8	48	78	7	166	34	16	20	28	1.94
45580505--45580612	44	2.5	44	83	6	130	34	18	15	31	1.92
45580694--45580816	45	2.8	44	80	2	138	35	17	15	30	1.91
45580694--45580789	44	2.2	44	84	1	120	34	20	13	31	1.92
45582307--45582418	60	1.9	60	81	5	138	33	8	2	54	1.46
45586222--45586261	20	2.0	20	85	5	53	27	30	0	42	1.56
45598804--45598844	21	2.0	21	85	9	57	46	2	2	48	1.28
45606041--45606071	4	7.8	4	92	0	53	51	3	22	22	1.62
45617386--45618121	372	2.0	372	94	1	1289	32	17	23	25	1.97
45618531--45618559	12	2.4	12	100	0	58	24	6	24	44	1.77
45620840--45620990	79	1.9	79	84	0	203	44	16	9	29	1.80
45626739--45626784	21	2.3	19	82	13	65	23	30	23	21	1.99
45626742--45626782	21	2.0	21	95	0	73	24	34	19	21	1.97
45628277--45628327	13	3.9	13	84	0	75	29	7	27	35	1.85
45633352--45633525	86	2.0	87	98	1	341	45	8	12	33	1.72
45636068--45636110	20	2.3	18	84	8	50	27	9	16	46	1.77
45639704--45639764	30	2.0	30	93	0	104	21	21	18	39	1.93
45640992--45641046	21	2.6	21	88	0	83	21	7	40	30	1.81
45641309--45641360	22	2.3	22	77	9	52	50	5	1	42	1.37
45650717--45650767	21	2.4	22	74	9	52	39	1	3	54	1.30
45651166--45651226	26	2.3	27	94	2	106	40	3	0	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45652431--45652464	4	8.5	4	100	0	68	0	23	0	76	0.79
45660948--45661068	25	5.3	21	66	29	54	49	4	2	43	1.35
45661493--45661562	29	2.3	29	85	4	86	21	14	15	48	1.80
45661848--45661884	19	1.9	20	88	5	58	0	27	2	70	1.01
45663006--45663034	15	1.9	15	100	0	58	48	13	6	31	1.69
45665766--45665810	23	2.0	23	82	8	56	55	8	8	26	1.60
45668241--45668278	20	1.9	20	84	10	51	60	0	5	34	1.19
45668658--45668692	14	2.5	14	86	13	54	40	2	5	51	1.40
45669421--45669517	4	24.2	4	97	0	167	21	0	27	50	1.49
45670026--45670171	58	2.5	56	82	11	161	43	0	2	53	1.17
45670045--45670133	15	6.1	15	71	16	55	48	1	2	48	1.21
45670054--45670192	60	2.4	57	85	4	170	44	2	2	51	1.25
45670360--45670398	16	2.4	16	91	8	62	30	23	7	38	1.83
45671581--45671857	97	2.9	95	84	6	366	40	1	18	39	1.61
45671910--45672184	126	2.2	126	91	0	433	32	17	19	30	1.95
45676654--45676685	16	2.1	16	94	5	57	59	0	0	40	0.97
45676646--45676697	24	2.0	26	85	10	72	57	0	0	42	0.98
45676656--45676713	24	2.4	22	78	16	53	55	0	3	41	1.17
45677431--45677486	21	2.7	20	78	8	67	16	21	26	35	1.94
45679530--45679560	13	2.4	13	94	0	53	67	0	0	32	0.91
45681145--45681196	24	2.2	24	92	0	86	34	1	7	55	1.39
45685299--45685324	6	4.3	6	100	0	52	50	34	15	0	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45690697--45690737	12	3.5	12	87	9	50	75	12	0	12	1.05
45690697--45690738	11	3.7	11	90	3	57	73	11	0	14	1.09
45691084--45691134	25	2.0	25	100	0	102	39	3	7	49	1.51
45691084--45691151	25	2.7	25	88	6	84	38	4	7	50	1.51
45690933--45691282	177	2.0	177	84	5	465	32	9	7	51	1.62
45703348--45703495	40	3.7	40	85	2	154	31	23	22	22	1.99
45703363--45703495	40	3.3	39	85	4	167	32	24	21	21	1.98
45703524--45703605	40	2.0	40	90	0	128	29	20	23	26	1.99
45703645--45703687	21	2.0	22	86	4	61	30	0	37	32	1.58
45703840--45703893	14	3.9	14	80	4	65	22	0	31	46	1.52
45703908--45703956	14	3.4	14	82	2	62	20	0	30	48	1.50
45703840--45703956	7	16.4	7	67	7	56	22	0	29	47	1.57
45703951--45703987	15	2.5	15	91	4	58	18	2	45	32	1.64
45703910--45704010	29	3.5	28	68	8	69	20	0	34	43	1.59
45705193--45705257	22	2.9	22	80	19	73	26	30	1	41	1.65
45705192--45705257	11	5.9	11	75	19	66	25	30	1	42	1.64
45707105--45707144	18	2.2	18	95	0	71	22	30	7	40	1.81
45710792--45711156	125	2.9	125	91	1	597	30	24	15	28	1.96
45711829--45711947	58	2.0	59	84	7	154	28	10	19	42	1.83
45714168--45714223	9	6.2	9	89	0	76	39	21	10	28	1.87
45714935--45715001	23	2.9	23	88	4	91	35	8	23	31	1.86
45715745--45715857	43	2.6	43	88	2	165	26	17	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45718045--45718078	18	1.9	17	94	5	59	41	0	0	58	0.98
45718679--45718746	36	1.9	34	85	5	91	32	10	11	45	1.74
45718736--45718811	33	2.3	32	80	12	84	26	9	19	44	1.80
45721633--45721698	33	2.0	33	100	0	132	51	6	21	21	1.69
45721941--45722028	31	3.0	30	66	16	76	36	17	22	23	1.94
45721951--45722045	31	3.3	26	66	17	64	37	17	23	21	1.94
45721902--45722074	60	2.9	57	76	13	172	40	16	19	23	1.91
45722918--45723004	39	2.2	40	85	6	115	26	24	27	21	1.99
45732999--45733057	25	2.2	29	82	11	72	69	1	27	1	1.07
45741743--45741784	19	2.2	20	82	4	50	50	0	2	47	1.14
45742249--45742425	73	2.4	73	88	1	248	16	20	18	44	1.87
45742309--45742435	37	3.5	36	70	11	105	16	22	18	43	1.88
45742271--45742403	37	3.7	35	70	13	92	16	21	19	42	1.89
45743315--45743359	22	2.0	22	83	8	56	48	0	2	48	1.13
45754730--45754772	21	1.9	24	86	13	65	41	6	4	46	1.51
45756270--45756319	21	2.5	20	78	15	59	58	4	2	36	1.29
45763880--45764028	3	49.7	3	84	0	163	32	5	4	57	1.42
45764135--45764191	18	3.2	17	74	18	53	19	3	7	70	1.26
45764517--45764659	71	2.0	70	91	1	232	29	18	16	35	1.93
45767211--45767285	9	7.8	9	76	15	53	41	13	0	45	1.43
45767195--45767271	38	2.0	38	97	0	145	44	10	1	44	1.46
45767956--45768007	25	2.1	25	85	7	70	0	23	3	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45772032--45772065	17	2.0	17	100	0	68	35	17	5	41	1.74
45775293--45775333	4	10.0	4	85	15	57	24	2	0	73	0.96
45778090--45778162	33	2.2	32	83	9	85	53	1	5	39	1.33
45778473--45778503	9	3.4	9	90	0	53	45	0	3	51	1.17
45778476--45778510	18	1.9	18	88	0	52	51	0	2	45	1.16
45778517--45778566	19	2.6	19	82	14	59	68	2	4	26	1.18
45779894--45779925	3	11.0	3	93	6	57	34	31	0	34	1.58
45783463--45783494	2	16.0	2	93	0	55	50	3	0	46	1.17
45783761--45783790	13	2.3	13	100	0	60	23	30	0	46	1.52
45784165--45784212	18	2.6	18	77	9	53	45	16	18	18	1.85

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