genome.fa.s1.2.7.7.80.10.50.1000.150.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  150  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)
44671720--44671770	11	4.7	11	79	13	61	39	0	0	60	0.97
44671720--44671795	32	2.4	32	82	4	84	38	0	2	59	1.12
44674568--44674636	26	2.8	26	84	6	90	37	23	21	17	1.94
44674737--44674793	25	2.3	25	82	14	73	47	21	17	14	1.82
44675089--44675127	5	7.6	5	82	5	51	41	17	0	41	1.50
44678333--44678369	18	2.1	18	100	0	74	32	16	5	45	1.70
44683477--44683511	18	2.0	17	88	5	52	65	2	0	31	1.07
44691037--44691119	42	2.0	43	87	2	123	38	26	13	21	1.90
44705590--44705651	13	4.8	13	78	4	54	27	16	25	30	1.96
44718517--44718555	20	2.0	20	85	10	53	35	0	2	61	1.10
44719286--44719341	19	2.9	19	78	0	67	39	0	0	60	0.97
44725229--44725265	16	2.3	16	86	13	58	40	0	0	59	0.97
44725279--44725338	28	2.1	29	87	3	86	53	0	1	45	1.10
44725305--44725335	16	1.9	16	93	0	53	45	0	3	51	1.17
44725314--44725367	22	2.5	22	84	6	65	40	0	1	57	1.09
44741072--44741273	60	3.4	60	76	6	189	38	26	12	22	1.90
44755623--44755690	31	2.2	31	86	5	93	47	8	11	32	1.71
44760789--44760867	27	2.9	27	96	0	140	26	20	36	16	1.93
44764171--44764210	21	2.0	21	90	5	64	50	2	0	47	1.14
44764187--44764254	5	13.8	5	90	3	102	55	0	0	44	0.99
44766327--44766379	3	18.0	3	84	3	72	32	3	1	62	1.24
44772165--44772192	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44776294--44776523	99	2.4	97	84	4	293	29	22	20	27	1.98
44784018--44784078	26	2.5	26	80	15	76	21	24	22	31	1.98
44796690--44796738	19	2.5	20	80	9	57	40	16	18	24	1.90
44799005--44799053	9	5.4	9	87	0	71	42	24	8	24	1.81
44799005--44799053	18	2.7	18	96	0	89	42	24	8	24	1.81
44801755--44802040	112	2.5	113	82	2	326	42	15	11	29	1.83
44801755--44802040	56	5.1	56	79	3	256	42	15	11	29	1.83
44802777--44802805	6	4.8	6	100	0	58	17	0	17	65	1.27
44802762--44802818	18	2.9	20	82	12	64	22	3	12	61	1.46
44804989--44805033	21	2.1	21	84	8	56	13	4	13	68	1.35
44805239--44805284	18	2.8	17	81	12	60	10	4	13	71	1.27
44825794--44825827	18	1.9	18	88	5	52	14	17	0	67	1.23
44826195--44826229	18	2.0	17	94	5	61	42	0	0	57	0.99
44826344--44826403	29	2.0	29	83	6	75	50	10	13	26	1.73
44827913--44827949	17	2.1	18	90	5	58	10	40	29	18	1.85
44828607--44828646	6	6.7	6	88	11	64	82	0	2	15	0.77
44832653--44832744	43	2.1	44	83	2	114	32	22	17	27	1.96
44836270--44836297	2	14.0	2	100	0	56	50	0	50	0	1.00
44838167--44838200	18	1.9	17	88	5	50	32	0	8	58	1.29
44845160--44845193	17	2.0	17	88	0	50	35	0	29	35	1.58
44852476--44852679	98	2.1	98	92	0	338	46	12	4	36	1.63
44855831--44855867	16	2.4	16	90	4	58	8	0	18	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44857198--44857223	5	5.2	5	100	0	52	42	19	19	19	1.90
44858239--44858275	9	4.1	9	92	0	65	29	10	13	45	1.77
44858305--44858337	11	3.0	11	100	0	66	9	9	9	72	1.28
44861484--44861608	62	2.0	62	93	0	214	35	22	14	28	1.93
44862658--44862707	19	2.6	19	87	3	73	18	26	34	22	1.96
44866731--44867828	370	3.0	371	97	1	2048	28	16	12	43	1.84
44869906--44869934	6	4.8	6	100	0	58	65	17	0	17	1.27
44872575--44872659	9	9.4	9	70	19	61	65	2	1	30	1.12
44872609--44872659	17	2.9	18	74	8	52	66	1	1	29	1.13
44872572--44872993	10	44.8	9	66	19	82	58	4	3	34	1.33
44872575--44872695	45	2.7	44	81	10	120	62	3	1	32	1.21
44872749--44872807	31	1.9	31	86	3	84	62	6	3	27	1.36
44872857--44872915	16	3.4	16	76	15	55	66	5	0	28	1.13
44872864--44872915	25	2.0	27	85	7	72	67	3	0	28	1.08
44880923--44881217	46	6.2	46	80	9	313	27	24	18	29	1.98
44880923--44881173	97	2.6	97	92	0	412	27	24	19	29	1.98
44880923--44881217	97	3.1	94	87	4	405	27	24	18	29	1.98
44882460--44882486	13	2.1	13	100	0	54	44	14	25	14	1.84
44888078--44888119	22	1.9	22	95	0	75	61	4	9	23	1.45
44888080--44888126	22	2.3	21	85	10	62	63	4	8	23	1.40
44888896--44888953	20	2.7	22	76	17	68	18	3	13	63	1.43
44888909--44888951	20	2.1	21	91	8	72	20	4	18	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44891065--44891114	21	2.5	20	83	3	64	30	18	20	32	1.96
44894501--44894617	58	2.0	58	98	0	225	43	19	10	26	1.83
44895040--44895193	43	3.6	43	82	9	190	28	25	16	28	1.97
44895538--44895886	68	5.1	68	91	0	518	41	15	14	28	1.86
44900560--44900610	25	2.0	26	84	3	68	41	9	9	39	1.71
44909031--44909081	25	2.0	25	85	7	68	58	5	7	27	1.49
44913127--44913335	50	4.1	50	85	5	265	19	30	23	26	1.98
44913134--44913335	100	2.0	104	89	5	313	19	30	24	25	1.98
44913430--44913461	13	2.5	13	94	0	55	56	12	0	31	1.37
44913673--44913730	30	1.9	30	89	0	89	31	24	3	41	1.71
44915442--44915476	14	2.3	16	85	14	56	65	0	22	11	1.24
44919968--44920693	89	8.6	85	78	10	568	32	14	10	42	1.80
44920058--44920194	72	1.9	72	83	3	177	32	13	11	43	1.80
44919972--44920631	158	3.9	160	77	11	469	33	14	10	42	1.79
44920129--44920707	89	6.7	86	85	3	569	33	13	10	41	1.80
44920130--44920525	177	2.3	175	87	2	562	34	14	10	40	1.81
44920513--44920714	84	2.4	82	87	4	287	28	13	11	46	1.78
44933228--44933331	52	2.0	52	90	3	165	33	4	12	49	1.62
44934737--44934780	15	2.9	16	83	16	58	61	4	9	25	1.45
44935338--44935392	21	2.6	21	82	0	65	29	27	12	30	1.93
44935920--44935978	18	3.4	18	78	15	63	61	1	28	8	1.35
44938539--44938816	27	10.3	27	77	9	221	43	19	17	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44938539--44938816	54	5.2	53	81	4	263	43	19	17	18	1.88
44938539--44938815	81	3.4	80	83	3	315	43	19	18	18	1.88
44938991--44939067	26	3.0	26	88	0	109	14	23	24	37	1.92
44940223--44940262	4	9.5	4	84	10	53	70	0	30	0	0.88
44944237--44944434	48	4.1	48	86	3	256	31	9	10	48	1.69
44946506--44946530	12	2.1	12	100	0	50	48	8	0	44	1.32
44947093--44947171	31	2.5	31	76	17	92	36	32	0	30	1.58
44947170--44947198	13	2.3	13	94	5	51	0	37	0	62	0.96
44950222--44950260	6	6.5	6	100	0	78	33	30	35	0	1.58
44954000--44954067	29	2.4	27	76	13	64	38	2	7	51	1.45
44954002--44954084	31	2.7	30	83	9	96	36	2	7	54	1.41
44957643--44957704	21	2.9	21	75	15	63	46	1	3	48	1.28
44957649--44957705	22	2.6	21	75	8	69	49	0	3	47	1.18
44957651--44957719	23	2.8	25	77	22	74	50	0	4	44	1.21
44957824--44957873	26	2.0	25	85	14	68	40	12	8	40	1.72
44958280--44958319	18	2.2	18	95	0	71	67	5	22	5	1.30
44966450--44966499	25	2.0	25	96	0	91	30	24	10	36	1.88
44966739--44966806	28	2.4	28	85	0	82	44	16	7	32	1.75
44966760--44966825	28	2.4	28	86	0	96	37	18	9	34	1.82
44976399--44976616	95	2.3	95	84	5	269	43	3	15	37	1.65
44976663--44976963	126	2.4	125	89	2	460	32	18	22	25	1.97
44976911--44976994	44	1.9	44	95	0	150	27	28	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44982517--44982573	11	5.1	11	78	2	51	43	0	31	24	1.54
44982555--44982582	12	2.3	12	100	0	56	50	0	28	21	1.49
44985839--44985914	38	2.0	38	100	0	152	31	21	21	26	1.98
44985935--44986002	16	4.3	15	92	5	82	33	0	33	32	1.58
44985945--44986004	16	3.8	16	93	4	95	35	0	35	30	1.58
44985983--44986092	45	2.6	43	80	9	129	33	5	29	31	1.80
44986266--44986312	15	3.3	15	72	22	55	46	10	0	42	1.38
44986268--44986313	12	3.3	14	74	20	51	45	10	0	43	1.39
44994096--44994146	19	2.6	20	76	11	52	33	5	0	60	1.21
44994128--44994188	33	1.9	33	87	12	92	47	0	1	50	1.10

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