genome.fa.s2.2.7.7.80.10.50.1000.11.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  11  of  206  ( 24623 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)
3273165--3273196	17	2.0	17	88	11	50	62	15	21	0	1.32
3274285--3274380	39	2.5	39	80	6	108	20	23	28	27	1.99
3277931--3277979	22	2.2	22	100	0	98	69	18	8	4	1.30
3278148--3278209	19	3.2	20	86	11	85	46	8	0	45	1.32
3278217--3278257	20	2.0	20	86	9	57	58	2	0	39	1.11
3281298--3281342	24	1.9	23	86	13	65	37	0	2	60	1.09
3281439--3281466	9	3.1	9	100	0	56	57	10	0	32	1.33
3281409--3281618	68	3.1	68	95	1	370	45	10	4	40	1.59
3281507--3281531	9	2.8	9	100	0	50	56	12	0	32	1.36
3281607--3281648	16	2.6	16	92	0	66	42	7	2	47	1.43
3281622--3281676	22	2.5	22	84	0	74	43	1	1	52	1.22
3282117--3282193	29	2.6	29	83	4	91	46	14	14	24	1.81
3288817--3288878	15	4.0	15	75	17	56	69	1	0	29	0.98
3291122--3291170	2	24.5	2	100	0	98	48	0	0	51	1.00
3291908--3291945	7	5.1	7	87	12	58	31	0	0	68	0.90
3292434--3292468	18	1.9	18	88	0	52	37	28	22	11	1.89
3295588--3295778	41	4.6	41	83	0	202	20	19	29	29	1.97
3296169--3296201	14	2.3	15	94	5	59	30	0	33	36	1.58
3296232--3296278	14	3.4	14	81	0	58	23	0	44	31	1.54
3296353--3296409	7	8.7	7	79	11	50	14	3	50	31	1.59
3296357--3296405	6	7.8	6	84	6	53	12	4	53	30	1.57
3296296--3296519	101	2.2	96	77	13	236	24	0	32	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3297409--3297639	115	2.0	118	91	2	378	41	15	10	32	1.81
3302353--3302580	43	5.3	43	85	4	273	23	16	32	26	1.96
3302353--3302580	85	2.7	86	87	2	334	23	16	32	26	1.96
3305317--3305350	17	1.9	17	88	5	50	20	8	0	70	1.13
3305346--3305387	14	3.0	14	85	0	57	11	16	0	71	1.14
3305490--3305540	23	2.3	22	89	3	75	35	7	0	56	1.28
3305490--3305552	23	2.8	23	85	4	67	33	6	0	60	1.22
3305490--3305541	24	2.2	24	89	3	79	34	7	0	57	1.27
3313048--3313081	17	2.1	16	88	5	50	32	0	0	67	0.91
3325174--3325218	21	2.1	21	83	0	54	46	2	22	28	1.63
3326852--3326907	28	2.2	24	81	12	58	35	1	3	58	1.26
3327861--3327914	17	3.2	17	81	2	65	24	1	1	72	1.05
3327870--3327924	18	3.1	17	82	7	65	25	0	1	72	0.94
3330350--3330397	19	2.6	18	76	6	51	41	2	0	56	1.11
3347369--3347497	60	2.2	60	86	0	177	23	17	32	26	1.97
3347389--3347510	60	2.0	60	80	3	138	22	18	33	24	1.97
3353654--3353747	30	3.1	30	95	1	161	25	26	6	41	1.79
3353664--3353740	15	5.1	15	69	12	68	25	23	7	42	1.81
3358307--3358400	30	3.1	30	83	7	118	26	24	7	41	1.81
3362247--3362291	19	2.4	18	82	10	54	17	22	35	24	1.95
3362300--3362355	21	2.7	21	82	0	67	23	32	32	12	1.92
3380880--3380908	14	2.0	15	93	6	51	13	0	17	68	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3382784--3382844	24	2.6	23	80	10	70	67	11	0	21	1.22
3383414--3383469	23	2.5	23	85	5	71	55	5	7	32	1.50
3383521--3383595	24	3.3	23	82	12	84	57	9	5	28	1.52
3383523--3383651	21	5.5	23	70	17	79	58	7	5	27	1.48
3383654--3383712	24	2.5	24	100	0	118	49	0	13	37	1.43
3395648--3395703	25	2.4	23	75	16	62	46	1	0	51	1.11
3398235--3398291	26	2.1	27	83	3	71	28	1	5	64	1.25
3399593--3399628	18	2.0	18	88	0	54	38	27	11	22	1.88
3401225--3401259	18	1.9	18	88	11	54	37	0	0	62	0.95
3401770--3401794	2	12.5	2	100	0	50	48	0	52	0	1.00
3405661--3405691	9	3.4	9	90	0	53	38	22	12	25	1.90
3405890--3405956	34	1.9	35	93	3	118	32	8	11	46	1.72
3406032--3406085	28	2.0	26	85	7	72	33	0	0	66	0.92
3411672--3411701	2	15.0	2	100	0	60	50	0	0	50	1.00
3414570--3414600	2	15.5	2	93	0	53	51	0	0	48	1.00
3415435--3415468	2	17.5	2	93	6	61	50	0	0	50	1.00
3416427--3416457	2	15.5	2	100	0	62	0	48	0	51	1.00
3419689--3419791	3	34.3	3	98	0	197	33	0	0	66	0.99
3422016--3422085	3	22.3	3	75	13	52	60	4	7	28	1.43
3427621--3427679	29	2.0	30	90	3	93	32	5	11	50	1.61
3427626--3427690	30	2.2	29	83	2	76	32	7	10	49	1.66
3434098--3434128	15	2.1	15	93	0	53	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435487--3435610	63	2.0	63	91	0	203	29	17	19	33	1.95
3436787--3436834	17	2.8	17	93	6	80	58	2	4	35	1.29
3449289--3449329	19	2.2	19	87	12	59	82	2	0	14	0.76
3449289--3449327	17	2.2	18	86	4	53	82	2	0	15	0.79
3449439--3449469	13	2.3	14	94	5	55	61	0	0	38	0.96
3449517--3449562	18	2.5	19	76	16	51	60	4	6	28	1.40
3449781--3449820	3	13.3	3	100	0	80	67	0	0	32	0.91
3449783--3449849	26	2.7	26	81	4	66	62	7	1	28	1.31
3455589--3455620	15	2.1	15	100	0	64	34	12	21	31	1.91
3457339--3457397	31	2.0	30	86	6	84	33	5	13	47	1.65
3461718--3461749	15	2.1	15	94	0	55	50	0	0	50	1.00
3461718--3461752	18	1.9	18	88	11	54	48	0	0	51	1.00
3462856--3462960	32	3.0	36	66	18	94	36	8	7	47	1.63
3462979--3463119	62	2.3	61	86	3	185	21	19	13	45	1.85
3469032--3469070	18	2.2	18	85	0	51	43	17	7	30	1.77
3473528--3473583	10	5.5	10	72	10	51	82	3	14	0	0.81
3473526--3473575	19	2.6	18	81	9	55	82	4	14	0	0.82
3473542--3473582	12	3.3	12	83	6	55	80	2	17	0	0.82
3473526--3473584	13	4.6	13	81	8	68	79	3	16	0	0.86
3473530--3473582	18	2.9	18	86	10	65	81	3	15	0	0.83
3474556--3474939	86	4.4	88	90	2	562	27	25	22	25	2.00
3474612--3474829	44	5.0	41	64	18	111	27	24	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474556--3474939	174	2.2	174	88	2	558	27	25	22	25	2.00
3474970--3475216	43	5.4	43	66	16	138	29	17	23	29	1.97
3474942--3475218	93	3.0	93	94	0	491	29	17	23	29	1.97
3475225--3475596	40	8.9	40	79	12	383	33	24	20	21	1.97
3475221--3475607	128	3.1	127	81	11	499	33	24	20	21	1.97
3475225--3475595	168	2.2	164	84	9	498	32	24	21	21	1.98
3475711--3475744	17	1.9	18	88	5	52	47	11	29	11	1.76
3477407--3477445	18	2.2	18	85	0	51	43	17	7	30	1.77
3479579--3479620	17	2.5	17	80	3	50	59	2	7	30	1.37
3481513--3481544	14	2.3	14	100	0	64	46	0	0	53	1.00
3485567--3485622	25	2.4	23	75	16	62	46	1	0	51	1.11
3491521--3491556	18	2.0	18	88	0	54	38	27	11	22	1.88
3494417--3494455	17	2.4	17	86	4	53	58	2	10	28	1.44
3504344--3504390	22	2.2	22	85	11	62	44	2	0	53	1.12
3506604--3506664	18	3.2	18	78	13	77	26	21	13	39	1.90
3506610--3506675	18	3.4	18	76	16	62	25	21	15	37	1.92
3507248--3507295	3	16.0	3	100	0	96	0	33	0	66	0.92
3507939--3508014	24	3.2	24	94	0	125	48	9	5	36	1.58
3511829--3511930	41	2.5	41	90	3	152	25	19	26	28	1.99
3515292--3515343	24	2.2	24	85	0	68	50	5	5	38	1.51
3519626--3519665	18	2.1	20	90	9	66	65	0	35	0	0.93
3519764--3519830	25	2.7	25	80	0	71	38	32	5	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3526453--3526482	15	1.9	16	93	6	53	50	46	0	3	1.18
3527638--3527671	8	4.2	8	88	11	52	26	8	2	61	1.40
3527889--3528201	109	2.9	109	94	0	538	29	15	19	34	1.93
3531732--3531758	12	2.2	12	100	0	54	25	18	22	33	1.97
3538930--3539025	31	3.1	31	92	7	167	31	8	13	46	1.73
3547230--3547333	54	1.9	54	98	0	199	39	18	23	19	1.92
3558001--3558034	17	2.0	17	100	0	68	29	17	5	47	1.71
3559938--3559967	6	5.0	6	91	0	51	36	46	16	0	1.47
3566904--3566950	21	2.1	21	84	7	58	59	0	0	40	0.97
3567489--3567513	4	6.2	4	100	0	50	76	0	0	24	0.80

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