genome.fa.s1.2.7.7.80.10.50.1000.120.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  120  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)
36151930--36151971	19	2.2	19	87	8	59	45	11	2	40	1.54
36152612--36152675	11	5.8	11	76	7	67	7	0	50	42	1.31
36152611--36152675	22	2.9	22	84	11	87	7	0	49	43	1.31
36153702--36153736	18	2.0	18	88	5	54	42	34	17	5	1.73
36155319--36155367	18	2.6	19	78	18	57	22	2	2	73	1.04
36155310--36155367	22	2.6	22	78	10	73	22	1	3	72	1.09
36157740--36157810	26	2.7	26	77	0	79	26	23	19	29	1.98
36158451--36158617	52	3.2	52	67	16	153	29	8	11	49	1.70
36158449--36158657	106	2.0	106	95	1	375	28	10	12	48	1.73
36160329--36160384	21	2.6	22	75	8	53	25	41	19	14	1.89
36170953--36171013	32	1.9	31	90	3	95	39	8	6	45	1.60
36174290--36174337	24	2.0	24	96	4	89	31	6	16	45	1.72
36181646--36181709	24	2.6	25	72	16	62	64	12	10	12	1.51
36185410--36185552	51	2.8	51	81	4	166	28	16	22	32	1.96
36190607--36190666	22	2.7	22	92	0	93	23	26	15	35	1.94
36192944--36193005	21	2.7	23	72	25	58	32	16	6	45	1.72
36196253--36196344	34	2.7	34	98	1	177	48	15	5	30	1.67
36211345--36211378	17	2.0	17	100	0	68	41	17	17	23	1.90
36213567--36213621	25	2.1	27	83	6	69	60	7	9	23	1.52
36214679--36214912	34	6.8	35	80	4	113	34	31	5	29	1.80
36214711--36214920	34	6.1	34	83	0	240	34	30	5	29	1.79
36215165--36215193	14	2.0	15	93	6	51	65	6	0	27	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36227239--36227267	13	2.2	13	100	0	58	48	31	20	0	1.50
36229467--36229492	11	2.4	11	100	0	52	26	0	0	73	0.84
36232152--36232176	9	2.8	9	100	0	50	36	12	12	40	1.79
36232288--36232349	25	2.5	25	89	0	97	29	22	25	22	1.99
36236326--36236401	34	2.2	34	90	0	116	36	6	13	43	1.70
36237915--36237955	17	2.4	18	88	8	59	75	4	9	9	1.17
36238901--36238956	10	5.5	10	76	2	58	19	23	12	44	1.84
36238891--36238956	20	3.2	20	76	2	60	24	22	12	40	1.88
36238901--36238960	30	2.0	31	86	3	86	18	21	13	46	1.83
36239004--36239059	20	2.7	21	86	10	80	30	26	12	30	1.93
36240418--36240471	6	9.0	6	83	0	72	75	1	18	3	1.03
36240438--36240489	24	2.2	24	85	0	68	71	5	17	5	1.26
36240420--36240498	36	2.2	36	84	4	97	69	5	18	6	1.29
36240550--36240588	18	2.3	18	86	8	55	69	0	15	15	1.20
36242401--36242476	34	2.2	34	95	0	134	35	7	13	43	1.73
36254597--36254640	22	2.0	21	83	12	54	40	0	0	59	0.98
36260155--36260187	17	1.9	17	93	0	57	33	0	30	36	1.58
36268519--36268582	30	2.0	30	85	11	83	10	28	6	54	1.59
36269495--36269634	53	2.6	54	81	2	156	45	18	15	21	1.86
36269495--36269646	27	5.7	27	76	7	148	44	21	14	20	1.87
36269661--36269710	25	2.0	26	81	18	61	26	12	18	44	1.84
36269798--36269860	26	2.4	26	91	0	108	19	20	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36270155--36270208	20	2.7	20	82	0	63	24	20	18	37	1.94
36270155--36270228	30	2.5	30	86	8	98	21	20	18	39	1.93
36270155--36270219	20	3.2	20	71	16	53	23	21	16	38	1.93
36271693--36271758	33	2.0	33	87	0	96	22	19	25	31	1.98
36278958--36279083	27	4.7	27	88	0	171	44	23	12	19	1.85
36280291--36280490	99	2.0	99	100	0	400	46	9	13	31	1.74
36281495--36281530	18	1.9	18	88	5	54	30	5	22	41	1.76
36281667--36281787	26	4.7	26	89	0	161	21	21	21	35	1.96
36281725--36281770	14	3.4	14	72	22	53	23	21	17	36	1.94
36287398--36287428	9	3.4	9	90	0	53	25	12	22	38	1.90
36287482--36287518	9	4.1	9	92	0	65	45	13	10	29	1.77
36289464--36289596	28	4.8	28	81	0	167	27	21	13	36	1.91
36295574--36295614	19	2.2	19	100	0	82	29	12	14	43	1.82
36296056--36296260	35	5.6	35	68	13	135	24	21	21	31	1.98
36296053--36296300	74	3.4	74	88	0	325	23	21	21	32	1.98
36297724--36297788	22	2.9	22	79	2	67	26	32	4	36	1.77
36311485--36311528	22	2.0	22	90	0	70	47	6	9	36	1.62
36320322--36320370	20	2.5	20	81	15	57	71	2	14	12	1.23
36321797--36321863	24	2.7	25	81	11	75	73	4	19	2	1.14
36321831--36321875	19	2.3	19	80	3	54	75	2	17	4	1.07
36322573--36322600	14	2.0	14	100	0	56	71	14	0	14	1.15
36336808--36337016	44	4.5	46	67	22	125	31	18	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36336811--36337182	142	2.6	142	94	0	647	31	18	21	27	1.97
36351143--36351213	27	2.6	27	93	0	124	25	30	21	22	1.98
36354893--36354990	27	3.6	27	97	0	169	18	21	21	38	1.93
36354879--36354990	54	2.1	54	87	0	161	21	19	22	36	1.95
36361995--36362178	27	6.8	27	87	2	217	17	17	22	41	1.90
36361992--36362178	81	2.3	81	85	1	259	18	17	22	41	1.90
36363121--36363159	14	2.6	15	88	8	53	66	7	25	0	1.18
36368416--36368455	16	2.5	16	100	0	80	22	25	30	22	1.99
36369257--36369284	10	2.8	10	100	0	56	14	10	0	75	1.06
36379173--36379212	21	1.9	21	89	0	62	45	7	0	47	1.31
36379181--36379241	20	3.0	20	79	9	61	44	3	4	47	1.41
36379501--36379553	20	2.7	20	82	8	72	22	16	11	49	1.78
36379958--36380202	20	12.6	20	69	19	83	22	17	5	54	1.63
36379959--36380103	78	1.9	77	82	5	184	20	17	5	56	1.60
36380129--36380202	21	3.6	21	72	17	64	27	17	1	54	1.51
36380097--36380187	39	2.3	38	81	9	101	23	16	5	54	1.62
36380210--36380262	20	2.6	20	80	11	63	16	18	9	54	1.69
36380283--36380361	39	2.1	39	83	6	101	25	18	6	49	1.71
36380304--36380421	20	5.9	20	70	11	71	22	16	10	51	1.73
36380408--36380469	30	2.1	30	87	6	90	16	12	9	61	1.56
36380774--36380851	41	1.9	41	92	5	131	12	17	14	55	1.70
36382655--36382689	13	2.7	13	90	0	52	42	11	0	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36384503--36384562	18	3.2	18	76	9	66	6	18	3	71	1.22
36385494--36385532	11	3.5	11	83	13	53	17	2	7	71	1.21
36387325--36387359	13	2.7	13	90	0	52	42	11	0	45	1.40
36388098--36388156	31	1.9	31	96	0	109	27	23	10	38	1.87
36388676--36389409	247	3.0	246	90	1	1112	30	11	22	35	1.90
36389172--36396495	712	10.5	712	80	7	7813	29	10	20	39	1.86
36396774--36396810	18	2.1	18	89	0	56	10	13	8	67	1.41
36396773--36396863	19	4.7	18	75	12	67	16	13	6	63	1.49
36396790--36396838	21	2.4	20	83	6	62	20	10	2	67	1.30
36396832--36396884	20	2.8	17	76	20	52	15	16	9	58	1.62
36396894--36396960	19	3.5	18	76	11	62	17	16	1	64	1.37
36396882--36396930	21	2.4	21	89	3	73	22	18	2	57	1.51
36396893--36396967	39	1.9	39	84	10	100	16	20	1	62	1.39
36397425--36397473	21	2.3	20	76	10	53	14	6	8	71	1.29
36397610--36397675	20	3.3	19	76	21	55	45	4	4	45	1.44
36397650--36397702	19	2.8	18	80	11	61	39	7	3	49	1.49
36406598--36406747	21	7.1	21	66	6	79	43	17	23	16	1.87
36406598--36406752	42	3.7	42	81	3	177	43	16	23	15	1.86
36407808--36407839	17	1.9	16	93	6	55	53	6	12	28	1.62
36411100--36411153	25	2.2	24	83	3	63	25	29	12	31	1.93
36411148--36411203	25	2.2	26	78	15	73	28	19	17	33	1.95
36419052--36419107	28	2.0	28	96	0	103	25	5	32	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36418861--36419276	219	1.9	218	91	0	688	26	12	30	30	1.93
36424772--36424810	18	2.2	17	86	13	53	46	20	0	33	1.51
36426538--36426597	31	1.9	31	100	0	120	26	21	13	38	1.90
36429126--36429156	16	1.9	16	100	0	62	48	0	0	51	1.00
36429696--36429730	19	1.9	17	88	11	52	74	5	14	5	1.19
36431515--36431550	18	2.0	18	89	10	56	77	0	2	19	0.88
36432669--36432734	12	5.3	12	82	10	53	74	0	3	22	0.96
36432669--36432700	14	2.4	14	90	10	50	65	0	6	28	1.16
36432682--36432734	6	8.8	6	87	0	79	77	0	0	22	0.77
36432682--36432734	18	2.9	18	94	0	88	77	0	0	22	0.77

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