genome.fa.s10.2.7.7.80.10.50.1000.180.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  180  of  202  ( 24201 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)
55643737--55643913	91	1.9	91	83	2	230	28	20	15	35	1.93
55649908--55650053	37	4.0	37	93	1	242	24	21	16	36	1.94
55650017--55650429	46	8.6	46	88	6	529	28	22	14	34	1.94
55655535--55655626	46	2.0	46	93	0	157	15	35	10	38	1.82
55671074--55671162	44	2.0	44	95	0	160	26	12	23	37	1.90
55671514--55671749	91	2.5	93	81	6	262	29	25	22	23	1.99
55671711--55672078	50	7.6	50	73	9	244	30	25	21	22	1.99
55671751--55671997	91	2.6	94	82	8	295	30	25	20	23	1.99
55671610--55671898	149	2.0	141	83	6	364	30	26	21	22	1.99
55671521--55672080	240	2.3	241	93	0	946	30	25	21	23	1.99
55673276--55673310	3	11.7	3	100	0	70	31	0	0	68	0.90
55676994--55677037	7	6.3	7	100	0	88	40	0	29	29	1.57
55678347--55678387	21	2.0	21	95	0	73	19	9	46	24	1.80
55679693--55679726	16	2.1	16	88	0	50	47	2	0	50	1.16
55682699--55682748	25	2.0	25	85	14	68	52	0	0	48	1.00
55698267--55698328	18	3.5	17	80	8	61	33	22	12	30	1.92
55699008--55699054	9	5.6	8	82	9	51	85	10	2	2	0.78
55699019--55699052	17	1.9	17	94	5	59	88	5	2	2	0.70
55699093--55699188	27	3.6	27	91	4	149	22	29	30	17	1.97
55699924--55699968	18	2.5	18	88	0	72	28	4	48	17	1.66
55703168--55703201	17	2.0	17	88	11	52	5	5	5	82	0.95
55703203--55703271	28	2.5	27	79	11	86	44	1	11	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55704042--55704185	41	3.6	40	76	14	120	0	32	0	67	0.91
55704070--55704198	23	5.5	24	73	10	97	0	34	0	65	0.93
55704077--55704164	10	8.7	10	71	16	65	0	31	0	68	0.90
55704077--55704181	33	3.2	33	75	12	99	0	31	0	68	0.90
55704095--55704167	34	2.1	34	87	7	112	0	34	0	65	0.93
55704071--55704184	10	11.1	10	69	15	54	0	31	0	68	0.90
55704095--55704185	28	2.9	30	75	19	89	0	34	0	65	0.93
55704041--55704198	42	4.0	40	73	16	107	0	34	0	65	0.93
55704233--55704300	27	2.5	27	95	0	118	19	27	26	26	1.99
55704233--55704311	27	2.9	27	88	7	108	16	27	26	29	1.97
55704363--55704433	28	2.5	29	90	4	110	50	1	9	38	1.44
55704695--55704731	16	2.3	16	100	0	74	10	45	32	10	1.74
55705152--55705187	13	2.8	13	95	0	63	16	27	19	36	1.93
55705772--55705823	18	2.9	18	77	5	52	48	1	1	48	1.24
55705819--55705868	18	2.6	19	84	12	59	36	0	6	58	1.23
55705819--55705869	19	2.7	20	82	14	63	35	0	5	58	1.22
55706286--55706342	28	2.0	27	83	12	71	33	0	3	63	1.12
55707416--55707451	12	2.7	14	83	16	58	38	11	0	50	1.38
55711403--55711819	221	1.9	217	94	2	726	50	16	17	16	1.79
55711831--55712149	89	3.6	88	79	7	398	54	16	14	14	1.72
55711746--55712136	172	2.3	173	92	1	651	52	17	15	14	1.75
55723302--55723330	12	2.3	13	94	5	51	20	6	6	65	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55732546--55732577	15	2.1	15	100	0	64	31	18	12	37	1.88
55736229--55736266	15	2.6	15	87	4	51	52	0	2	44	1.14
55747729--55747779	25	2.0	25	88	0	75	62	5	3	27	1.36
55750236--55750297	17	3.6	17	76	6	63	40	1	0	58	1.08
55750249--55750315	7	8.6	7	81	12	53	32	1	0	65	1.02
55750242--55750312	35	2.1	35	84	5	92	36	1	0	61	1.05
55750331--55750381	26	2.0	26	84	0	66	35	1	1	60	1.19
55750875--55750933	19	3.2	19	61	9	50	52	1	6	38	1.38
55761114--55761164	25	2.0	25	88	0	75	62	5	3	27	1.36
55763624--55763688	8	7.9	8	73	13	51	41	1	0	56	1.08
55763719--55763769	26	2.0	26	84	0	66	35	1	1	60	1.19
55771882--55772340	221	2.1	223	89	1	688	35	10	14	40	1.80
55791306--55791333	13	2.2	13	100	0	56	14	14	10	60	1.58
55807908--55807958	25	2.0	25	92	0	84	62	3	3	29	1.31
55833625--55833800	41	4.3	41	92	0	298	23	28	19	27	1.98
55836226--55836287	26	2.4	26	81	5	72	30	12	17	38	1.88
55839204--55839252	24	2.0	24	92	0	80	61	4	4	30	1.33
55862892--55863460	284	2.0	284	99	0	1129	30	17	13	38	1.88
55869953--55870008	27	2.1	27	86	0	76	37	23	23	16	1.93
55879539--55879623	44	1.9	44	82	0	107	41	30	12	15	1.85
55882475--55882518	16	2.8	16	100	0	88	36	18	13	31	1.90
55892912--55893107	89	2.2	89	84	5	261	31	18	21	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55892957--55893101	44	3.3	44	69	5	130	30	18	21	29	1.97
55895031--55895068	15	2.5	15	87	12	51	26	10	0	63	1.27
55897085--55897132	25	1.9	25	82	0	60	39	10	6	43	1.64
55904890--55904966	32	2.4	32	81	14	88	62	2	0	35	1.09
55912985--55913029	22	2.0	22	86	4	63	55	0	0	44	0.99
55912988--55913033	14	3.2	14	87	6	65	52	0	0	47	1.00
55917047--55917117	29	2.4	30	79	11	74	21	16	7	54	1.65
55923381--55923406	13	2.0	13	100	0	52	61	7	7	23	1.49
55931443--55931467	12	2.1	12	100	0	50	60	0	8	32	1.26
55939351--55939641	46	6.6	46	87	8	426	34	14	20	29	1.93
55939434--55939504	36	2.0	36	97	0	133	39	16	16	26	1.91
55939385--55939640	82	3.0	83	86	11	383	34	15	19	29	1.93
55939351--55939596	128	1.9	128	95	0	447	35	14	20	30	1.92
55940356--55940410	28	2.0	28	89	7	85	29	3	0	67	1.08
55940357--55940430	29	2.5	29	80	8	87	29	2	0	67	1.04
55946741--55946797	21	2.7	21	83	0	78	12	29	35	22	1.91
55947460--55947501	21	2.0	20	86	4	57	14	11	23	50	1.76
55948298--55948362	32	2.0	32	100	0	130	24	21	10	43	1.84
55952519--55952570	18	3.0	18	72	16	56	42	3	0	53	1.19
55956304--55956349	22	2.1	22	91	0	74	60	26	0	13	1.32
55957012--55957060	25	2.0	25	83	0	62	30	6	6	57	1.48
55957104--55957171	25	2.6	27	69	9	68	38	4	2	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55967541--55967579	16	2.4	16	86	0	51	23	12	20	43	1.86
55967550--55967580	16	1.9	16	93	0	53	22	9	22	45	1.81
55972264--55972320	28	1.9	31	82	10	75	36	1	1	59	1.18
55973090--55973114	13	1.9	13	100	0	50	32	4	24	40	1.73
55974201--55974359	43	3.7	42	82	7	187	24	18	27	28	1.98
55977242--55977304	31	2.0	32	81	3	74	57	19	9	14	1.64
55977563--55977610	25	1.9	25	86	0	69	43	22	8	25	1.81
55979838--55979881	23	1.9	23	81	9	54	47	6	9	36	1.62
55985553--55985682	66	2.0	66	95	0	233	24	4	16	54	1.60
55986169--55986245	27	2.9	27	90	3	120	16	24	38	19	1.92
55986430--55986467	19	2.0	19	89	0	58	50	7	5	36	1.54
55986563--55986684	22	4.9	26	80	17	152	53	12	0	33	1.44
55986510--55986681	49	3.6	49	85	6	235	53	13	1	31	1.47
55986724--55986795	27	2.7	27	93	0	117	34	0	12	52	1.39
55986895--55986932	19	2.0	19	89	0	58	42	5	7	44	1.56
55987093--55987136	21	2.2	21	92	8	74	27	2	0	70	0.99
55987298--55987359	27	2.3	27	97	0	115	14	33	22	29	1.94
55987420--55987451	12	2.8	12	86	13	50	71	0	0	28	0.86
55996122--55996159	19	2.0	20	94	5	69	60	0	2	36	1.11
55996122--55996198	29	2.6	29	70	12	75	61	0	2	36	1.10
55998829--55998872	20	2.3	19	88	4	61	63	4	2	29	1.26
55998829--55998875	19	2.4	20	85	3	60	59	8	2	29	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55999157--55999196	21	1.9	21	85	10	55	22	20	12	45	1.84
56004061--56004115	25	2.2	25	93	0	92	38	16	14	30	1.89
56009635--56010199	114	5.0	112	76	9	455	30	18	24	27	1.98
56011240--56011291	7	7.3	7	84	2	50	7	0	48	44	1.31
56011881--56012158	147	1.9	147	80	7	332	25	14	25	34	1.94
56013361--56013419	27	2.2	27	93	0	100	35	15	1	47	1.55
56018614--56018732	42	2.8	42	94	0	211	22	21	22	33	1.97
56021017--56021053	2	18.5	2	100	0	74	51	0	0	48	1.00
56026690--56026754	30	2.2	30	83	5	78	41	3	4	50	1.38
56026687--56026760	30	2.5	30	76	10	71	40	5	4	50	1.44

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