genome.fa.s1.2.7.7.80.10.50.1000.173.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  173  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)
51775218--51775289	29	2.4	30	86	6	103	43	11	29	16	1.82
51775352--51775411	30	2.0	30	90	0	93	41	13	16	28	1.86
51775280--51775424	72	2.0	72	94	0	254	37	9	24	27	1.87
51775377--51775491	59	1.9	59	81	10	137	37	13	26	22	1.92
51784312--51784808	29	17.1	29	78	6	364	23	24	14	37	1.92
51784315--51784799	87	5.6	87	83	1	542	23	25	13	37	1.92
51790165--51790211	24	2.0	23	87	4	67	42	2	29	25	1.67
51790359--51790428	28	2.5	28	92	0	113	41	7	0	51	1.29
51790476--51790527	27	1.9	27	92	0	86	30	21	32	15	1.94
51790954--51791002	18	2.6	19	80	6	64	38	14	0	46	1.44
51791006--51791100	37	2.6	37	96	3	176	49	0	12	37	1.41
51791006--51791100	18	5.2	19	77	7	108	49	0	12	37	1.41
51791651--51791702	27	1.9	27	88	0	77	15	30	21	32	1.94
51791750--51791817	26	2.5	28	92	4	113	52	0	7	39	1.29
51792081--51792112	13	2.5	13	95	5	57	50	0	0	50	1.00
51795521--51795706	45	4.2	45	86	4	225	35	28	16	19	1.93
51801418--51801485	3	22.3	3	75	8	57	30	5	2	60	1.35
51801411--51801485	19	3.7	20	72	20	66	30	5	4	60	1.38
51804744--51804838	40	2.4	40	87	0	127	41	21	15	22	1.90
51804918--51805116	41	4.9	40	82	5	229	21	20	27	31	1.98
51808665--51808695	16	1.9	16	100	0	62	35	12	12	38	1.82
51809871--51810182	43	7.3	43	91	1	448	18	18	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51809871--51810182	85	3.7	85	88	1	437	18	18	32	30	1.95
51809871--51810182	128	2.4	129	89	2	459	18	18	32	30	1.95
51818696--51818777	39	2.1	39	93	0	137	23	20	10	45	1.83
51832020--51832058	19	2.0	20	90	5	62	48	0	7	43	1.31
51832020--51832070	17	2.7	19	85	8	61	47	1	5	45	1.38
51832778--51832827	22	2.3	22	86	3	66	60	2	2	36	1.20
51834133--51834273	34	4.1	34	86	0	192	27	9	25	36	1.88
51835338--51835368	16	1.9	16	93	0	53	32	0	54	12	1.38
51839284--51839321	20	1.9	20	89	10	60	60	5	0	34	1.19
51846196--51846230	7	5.0	7	96	0	61	31	0	54	14	1.40
51849873--51849903	11	2.7	11	95	5	53	70	3	9	16	1.26
51849861--51849894	17	2.0	17	88	0	50	67	5	8	17	1.37
51850661--51850765	40	2.6	40	84	3	131	16	28	17	38	1.91
51855924--51855977	17	3.2	17	76	5	56	18	18	38	24	1.93
51857472--51857524	26	2.0	26	100	0	106	28	18	30	22	1.98
51858379--51858408	15	2.0	15	93	0	51	26	23	26	23	2.00
51864738--51864789	21	2.7	19	72	13	52	28	3	17	50	1.64
51864741--51864783	21	2.0	21	86	0	59	32	4	18	44	1.71
51866702--51866745	18	2.4	18	78	10	54	40	15	2	40	1.60
51867618--51867652	18	2.0	18	94	5	63	17	45	25	11	1.81
51872108--51872157	19	2.5	21	81	15	61	64	0	4	32	1.12
51876375--51876508	50	2.7	50	83	3	162	23	19	27	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51876375--51876516	51	2.8	50	82	3	169	23	19	28	28	1.98
51876512--51876610	46	2.2	43	79	12	101	23	19	24	33	1.97
51876734--51876765	16	2.0	16	93	0	55	59	0	15	25	1.36
51879329--51879396	19	3.5	19	73	16	68	30	7	16	45	1.74
51879929--51879979	19	2.6	20	78	3	59	64	11	0	23	1.26
51881646--51881721	35	2.2	33	84	11	91	44	0	6	48	1.28
51882070--51882094	11	2.3	11	100	0	50	76	0	24	0	0.80
51882779--51882861	40	2.1	40	84	2	105	31	7	20	40	1.79
51882799--51882885	40	2.2	40	83	8	106	31	8	20	40	1.82
51883090--51883188	44	2.2	45	85	1	128	26	18	13	42	1.86
51890347--51890519	26	6.7	26	91	0	274	21	24	25	28	1.99
51890730--51890780	25	2.0	25	85	7	68	35	9	11	43	1.75
51891831--51891866	18	2.0	18	100	0	72	38	16	5	38	1.72
51896508--51896554	23	2.0	23	88	8	69	25	6	12	55	1.61
51899854--51899905	10	5.1	10	82	11	61	59	11	0	28	1.32
51901546--51901570	2	12.5	2	100	0	50	52	0	0	48	1.00
51902482--51902637	41	3.8	41	85	2	163	32	26	21	19	1.97
51902570--51902601	16	2.0	16	93	0	55	28	25	28	18	1.98
51910639--51910741	41	2.5	41	80	3	109	37	18	20	23	1.94
51910680--51910758	41	1.9	41	87	5	115	34	22	22	20	1.97
51910680--51910772	41	2.3	40	83	10	109	33	23	22	20	1.97
51913047--51913102	27	2.0	27	83	13	69	50	1	3	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51918707--51918900	51	3.8	50	79	6	214	23	18	27	30	1.98
51918815--51918895	26	3.2	26	65	28	73	22	16	28	33	1.95
51919119--51919150	16	2.0	16	93	0	55	59	0	15	25	1.36
51919433--51920004	287	2.0	287	91	0	939	38	10	19	31	1.86
51925071--51925265	51	3.9	50	81	6	225	23	18	28	29	1.98
51925179--51925259	26	3.2	26	65	28	73	22	16	28	33	1.95
51925482--51925513	16	2.0	16	93	0	55	59	0	15	25	1.36
51929760--51929829	26	2.7	26	86	0	104	28	28	21	21	1.99
51946326--51946372	25	2.0	23	84	16	60	38	12	0	48	1.41
51946451--51946595	22	6.6	22	90	0	209	26	26	14	33	1.94
51953526--51953572	25	2.0	23	84	16	60	38	12	0	48	1.41
51956873--51957086	42	5.1	42	80	9	249	36	24	16	21	1.94
51956873--51957080	84	2.5	84	93	1	355	37	25	16	21	1.94
51957094--51957280	51	3.7	51	81	5	227	29	27	18	24	1.98
51957092--51957276	101	1.8	101	87	3	273	30	27	18	24	1.98
51970391--51970436	23	2.0	23	100	0	92	39	17	13	30	1.87
51973636--51973714	25	3.2	24	77	12	88	32	22	24	20	1.97
51973642--51973713	24	3.0	24	78	10	83	34	23	20	20	1.96
51973604--51973714	50	2.2	51	85	4	147	29	22	24	23	1.99
51978568--51978614	6	7.8	6	90	0	58	17	59	17	6	1.57
51981894--51981927	16	2.1	16	100	0	68	38	17	5	38	1.74
51983218--51983264	20	2.4	19	82	10	58	59	6	2	31	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51983865--51983899	18	1.9	18	100	0	70	25	40	34	0	1.56
51989498--51989699	27	7.4	28	88	3	245	43	11	20	24	1.84
51989498--51989686	55	3.5	54	85	5	254	42	12	20	24	1.86
51991212--51991405	50	3.7	50	83	4	208	24	28	21	25	1.99
51993574--51993624	26	2.0	26	100	0	102	15	23	33	27	1.95
51993602--51993793	43	4.5	43	73	13	146	22	17	25	35	1.95
51993602--51993921	85	3.8	85	81	1	313	23	17	25	34	1.96
51993602--51993834	42	5.5	40	74	12	162	23	17	24	35	1.95
52016833--52016914	42	2.0	42	82	4	103	30	23	14	31	1.94
52019351--52019583	85	2.8	84	90	2	342	36	24	17	21	1.95
52019357--52019583	43	5.4	42	77	7	228	36	25	16	21	1.94
52022143--52022324	44	4.1	44	84	7	208	31	23	18	25	1.97
52023588--52023682	47	2.0	47	93	0	163	41	7	24	27	1.81
52035545--52035731	40	4.7	40	75	6	137	31	14	22	31	1.94
52037784--52037867	40	2.1	40	86	4	116	28	19	21	30	1.97
52038084--52038174	40	2.3	39	81	5	101	27	21	25	25	2.00
52037955--52038315	155	2.4	148	80	3	364	30	18	21	29	1.97
52038726--52038953	7	32.3	7	70	6	93	18	3	34	43	1.66
52038827--52038934	29	3.7	27	75	11	74	18	4	37	38	1.72
52038855--52038913	22	2.7	22	86	0	73	18	6	40	33	1.77
52038794--52038947	22	7.2	21	71	8	66	16	4	36	42	1.69
52039476--52039500	13	1.9	13	100	0	50	16	32	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52039535--52039582	24	2.0	24	100	0	96	20	4	8	66	1.35
52041486--52041651	9	18.9	9	79	13	168	46	15	1	36	1.54
52041486--52041651	17	9.4	18	76	13	168	46	15	1	36	1.54
52041486--52041653	43	4.0	42	75	14	136	47	15	1	36	1.54
52041491--52041651	37	4.3	37	76	19	165	46	16	1	36	1.55
52041491--52041651	26	6.1	26	77	13	154	46	16	1	36	1.55
52046778--52046820	14	2.9	15	76	16	54	32	2	11	53	1.50
52046968--52047116	41	3.7	40	79	5	147	21	22	23	32	1.98
52046995--52047026	16	2.0	16	93	0	55	18	28	25	28	1.98
52055203--52055286	43	2.0	42	85	2	114	50	2	21	26	1.61

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