genome.fa.s10.2.7.7.80.10.50.1000.139.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  139  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)
43198642--43198668	5	5.4	5	100	0	54	81	0	0	18	0.69
43200395--43200649	50	5.1	50	73	5	221	25	15	27	31	1.96
43200402--43200676	101	2.7	99	80	6	295	26	14	27	31	1.95
43204252--43204374	40	3.1	40	82	5	151	39	25	17	17	1.91
43204252--43204369	39	3.0	39	83	3	139	38	26	16	17	1.91
43205303--43205327	10	2.5	10	100	0	50	24	0	8	68	1.16
43218588--43218619	16	2.0	16	100	0	64	37	25	12	25	1.91
43222905--43222941	19	2.0	19	89	5	58	32	2	16	48	1.60
43222926--43222975	20	2.5	20	78	15	50	40	6	16	38	1.73
43223572--43223631	30	2.0	30	100	0	120	33	13	16	36	1.88
43224601--43224653	22	2.4	22	100	0	106	37	3	7	50	1.49
43232243--43232271	14	2.0	15	93	6	51	17	20	0	62	1.33
43233537--43233573	13	3.2	12	85	14	51	51	0	2	45	1.15
43237968--43237998	16	1.9	16	93	0	53	41	9	3	45	1.53
43238953--43238995	22	2.0	21	86	9	59	74	0	4	20	1.00
43239193--43239237	20	2.3	20	88	3	74	77	4	11	6	1.09
43247816--43247874	26	2.3	26	90	0	100	20	38	18	22	1.93
43248818--43248854	19	1.9	19	94	0	65	48	0	21	29	1.50
43249982--43250014	15	2.2	15	94	0	57	39	9	15	36	1.79
43254007--43254062	28	2.0	28	100	0	112	53	0	28	17	1.44
43254802--43254878	29	2.5	30	75	6	75	48	3	16	31	1.65
43258350--43258435	46	2.0	43	81	9	102	36	22	16	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43264417--43264512	42	2.3	42	96	1	174	53	6	12	28	1.62
43264440--43264530	42	2.1	42	81	2	101	59	4	7	28	1.45
43266747--43266780	17	2.0	17	100	0	68	29	29	11	29	1.92
43268080--43268129	24	2.1	24	100	0	100	32	12	22	34	1.90
43268622--43268667	7	6.7	7	87	2	58	43	4	50	2	1.34
43268622--43268667	21	2.2	20	88	3	65	43	4	50	2	1.34
43269204--43269594	134	2.9	135	75	11	346	41	27	1	28	1.65
43269563--43269594	7	4.6	7	92	0	55	31	50	0	18	1.48
43269614--43269646	14	2.3	15	94	5	59	36	33	0	30	1.58
43277694--43277775	35	2.3	36	81	8	98	32	4	17	45	1.69
43279666--43279699	10	3.3	10	84	8	50	67	11	11	8	1.42
43279948--43280002	20	2.8	20	97	0	101	30	25	27	16	1.96
43286895--43286920	13	2.0	13	100	0	52	38	23	7	30	1.83
43294190--43294243	16	3.4	16	89	0	81	38	3	31	25	1.74
43294222--43294318	45	2.2	44	83	5	124	32	4	26	36	1.76
43294592--43294638	18	2.6	18	90	6	69	57	0	0	42	0.98
43294453--43295086	120	5.3	120	91	1	1017	51	4	1	42	1.30
43294793--43294851	26	2.3	25	80	13	66	57	0	0	42	0.98
43294712--43294878	18	8.6	19	67	18	62	53	2	0	43	1.18
43295130--43295174	15	2.8	17	93	6	76	53	6	0	40	1.27
43298046--43298093	17	2.7	18	87	3	62	66	18	10	4	1.37
43298046--43298093	6	8.2	6	93	4	62	66	18	10	4	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43305074--43305115	16	2.6	16	96	3	75	66	9	9	14	1.44
43305624--43305696	30	2.4	30	86	6	103	34	15	6	43	1.73
43305749--43305783	16	2.1	17	89	5	54	45	0	11	42	1.40
43308899--43309289	50	7.8	50	85	0	494	21	30	20	27	1.98
43312095--43312731	318	2.0	318	91	0	1040	33	20	10	35	1.87
43316785--43316968	50	3.7	50	80	0	197	20	29	22	27	1.98
43316785--43316968	100	1.8	101	83	1	244	20	29	22	27	1.98
43321407--43321602	48	4.1	48	80	1	196	23	26	20	28	1.99
43321407--43321580	96	1.8	96	84	2	242	22	28	20	28	1.98
43324457--43324654	48	4.1	48	82	3	202	23	26	21	27	1.99
43325873--43325926	20	2.6	21	74	11	58	31	14	29	24	1.95
43325873--43326045	41	4.2	41	80	5	197	34	15	27	22	1.95
43325873--43326045	82	2.1	82	83	2	222	34	15	27	22	1.95
43334476--43334625	42	3.6	43	77	7	155	35	24	18	21	1.96
43334632--43334819	41	4.6	41	92	0	277	23	24	20	31	1.98
43342268--43342459	41	4.7	41	85	3	244	23	23	20	31	1.98
43342271--43342455	82	2.3	82	89	1	282	24	22	21	31	1.98
43349337--43349392	27	2.1	27	96	0	103	28	19	12	39	1.88
43363947--43364005	20	3.0	19	80	9	66	52	3	1	42	1.28
43363973--43364004	5	6.2	5	96	3	55	56	0	0	43	0.99
43377065--43377139	26	2.9	26	82	5	91	30	16	9	44	1.79
43377284--43377320	18	2.1	18	94	0	65	21	18	0	59	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43378082--43378138	26	2.2	26	83	0	69	33	17	7	42	1.76
43378096--43378156	25	2.4	26	88	2	88	31	14	11	42	1.81
43389616--43389664	22	2.2	22	88	0	71	26	22	16	34	1.95
43390382--43390412	14	2.2	14	100	0	62	41	6	19	32	1.77
43394196--43394435	119	2.0	119	97	0	453	30	10	19	39	1.86
43396658--43396805	59	2.5	59	80	2	154	39	12	18	29	1.88
43396712--43396827	59	2.0	59	82	0	142	39	12	18	30	1.87
43401379--43401435	28	2.0	28	82	0	69	50	1	1	45	1.22
43402319--43402872	114	4.9	110	73	11	402	31	19	23	26	1.98
43405279--43405305	8	3.4	8	100	0	54	22	0	33	44	1.53
43406528--43406552	6	4.2	6	100	0	50	16	0	0	84	0.63
43407487--43407825	9	39.4	9	77	14	303	47	17	1	33	1.57
43407638--43407694	25	2.3	25	84	6	71	45	21	1	31	1.62
43407678--43407825	41	3.7	41	82	14	184	44	20	2	32	1.65
43407678--43407825	75	2.0	76	89	5	212	44	20	2	32	1.65
43413279--43413348	21	3.3	21	89	0	104	31	17	45	5	1.71
43413719--43413858	43	3.3	42	85	5	165	26	20	23	29	1.99
43413738--43413990	43	5.9	42	80	6	240	24	23	20	30	1.99
43413781--43413991	42	4.9	42	80	5	219	24	23	19	32	1.97
43413738--43413990	85	3.0	85	79	4	260	24	23	20	30	1.99
43414718--43414777	30	2.0	30	93	0	102	26	3	13	56	1.52
43427711--43427753	23	1.9	22	86	13	61	65	6	6	20	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43428916--43428966	22	2.3	22	83	12	61	29	15	9	45	1.79
43429357--43429738	190	2.0	190	92	0	629	28	9	24	37	1.87
43435405--43435447	15	2.7	15	78	7	50	2	30	0	67	1.03
43437632--43437733	48	2.1	48	96	0	186	35	34	10	19	1.87
43439877--43439928	22	2.3	22	83	3	59	13	17	25	44	1.85
43439887--43439929	22	2.0	22	90	0	68	6	16	30	46	1.73
43439852--43439963	20	5.2	20	73	12	80	12	18	26	41	1.86
43458285--43458333	3	16.3	3	100	0	98	32	0	0	67	0.91
43458748--43458794	23	2.0	23	84	8	60	19	0	8	72	1.10
43460241--43460270	15	2.0	15	100	0	60	53	6	20	20	1.67
43463419--43463451	6	5.5	6	96	0	57	36	15	12	36	1.84
43464566--43464613	22	2.2	22	77	3	53	35	4	8	52	1.51
43466371--43466412	18	2.4	18	92	4	68	40	19	19	21	1.92
43469056--43469335	50	5.7	49	83	5	341	27	19	33	20	1.96
43469060--43469335	97	2.8	98	83	5	333	27	19	32	20	1.96
43469056--43469332	147	1.9	147	95	0	500	27	19	33	20	1.96
43474591--43474615	8	3.1	8	100	0	50	36	0	12	52	1.39
43475461--43475515	20	2.7	19	75	10	56	14	30	16	38	1.89
43476287--43476328	20	2.1	20	86	0	57	26	0	30	42	1.55
43481280--43481304	13	1.9	13	100	0	50	12	8	8	72	1.29
43485425--43485476	24	2.2	24	85	0	68	53	9	3	32	1.51
43485626--43485663	18	2.1	18	90	0	58	21	5	34	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43493336--43493520	51	3.7	50	78	9	171	24	17	27	30	1.97
43493336--43493520	101	1.8	102	88	3	284	24	17	27	30	1.97
43493548--43493886	33	9.8	33	68	24	182	19	19	28	32	1.96
43493544--43493849	102	3.0	102	95	0	531	19	18	28	33	1.96
43494653--43494753	49	2.1	49	83	3	123	26	13	28	30	1.94
43496168--43496195	8	3.5	8	100	0	56	25	0	0	75	0.81
43500171--43500227	30	1.9	30	88	0	87	22	21	21	35	1.96
43505636--43505675	18	2.3	17	91	4	62	47	2	0	50	1.14
43507710--43507776	34	1.9	35	87	3	100	46	11	8	32	1.72
43509204--43509370	89	1.9	88	87	1	244	41	13	13	31	1.83

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