genome.fa.s10.2.7.7.80.10.50.1000.55.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  55  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)
16306127--16306175	24	2.1	23	84	3	62	24	30	0	44	1.54
16318817--16318853	18	2.1	18	100	0	74	43	27	16	13	1.85
16319554--16319695	76	2.0	71	82	12	173	37	6	9	47	1.61
16319962--16320029	35	2.0	34	85	2	91	47	7	10	35	1.66
16320312--16320344	17	1.9	17	100	0	66	48	0	9	42	1.35
16326846--16326900	26	2.1	25	83	12	67	47	5	0	47	1.25
16330102--16330128	2	13.5	2	100	0	54	51	0	0	48	1.00
16331514--16331595	19	4.3	19	71	13	53	39	2	1	57	1.20
16331521--16331593	20	3.8	20	78	10	71	41	2	0	56	1.14
16331541--16331594	10	5.5	10	75	18	51	42	1	0	55	1.10
16331539--16331604	20	3.3	20	73	12	57	39	1	1	57	1.17
16334831--16334896	3	22.0	3	100	0	132	66	0	0	33	0.92
16344122--16344235	61	1.9	60	82	8	144	49	3	4	42	1.39
16344210--16344258	20	2.7	18	81	12	64	48	2	0	48	1.12
16344223--16344260	20	1.9	20	94	0	67	47	2	0	50	1.15
16344179--16344321	68	2.0	72	81	7	170	51	4	2	41	1.35
16351055--16351124	32	2.2	32	97	2	131	34	18	7	40	1.78
16355933--16356076	52	2.7	53	81	8	141	25	4	31	38	1.77
16359626--16359680	27	2.0	27	100	0	110	38	21	14	25	1.92
16360569--16360625	3	19.0	3	100	0	114	33	33	0	33	1.58
16374907--16374938	16	2.0	16	93	0	55	3	18	0	78	0.89
16374934--16374963	16	1.9	16	93	6	53	13	6	6	73	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16376321--16376389	16	4.3	16	88	0	93	37	4	33	24	1.75
16376321--16376389	32	2.2	32	91	0	111	37	4	33	24	1.75
16376373--16376463	44	2.0	46	89	4	141	27	4	29	38	1.76
16376373--16376481	39	2.5	44	80	14	129	30	4	29	35	1.78
16376603--16376742	26	5.5	26	68	14	96	55	2	0	40	1.20
16376623--16376756	18	7.9	18	68	17	81	56	2	1	39	1.21
16394930--16394975	22	2.1	22	100	0	92	26	30	4	39	1.75
16398274--16398359	9	9.4	9	87	7	129	38	29	10	22	1.87
16400624--16400662	20	2.0	20	89	0	60	41	2	23	33	1.68
16409144--16409175	16	1.9	17	93	6	57	37	21	0	40	1.54
16409336--16409504	43	4.0	43	81	11	179	33	27	16	22	1.96
16409336--16409491	84	1.9	83	85	5	215	31	28	17	23	1.97
16417230--16417273	21	2.2	20	87	4	61	31	22	9	36	1.86
16418019--16418049	3	10.3	3	100	0	62	67	0	0	32	0.91
16418974--16419008	11	2.9	12	87	12	54	37	0	0	62	0.95
16419961--16419987	4	6.8	4	100	0	54	22	0	0	77	0.76
16420643--16420687	16	2.8	16	72	0	54	46	4	22	26	1.70
16420622--16420687	32	2.1	32	94	0	114	43	6	24	25	1.77
16423123--16423179	30	1.9	29	85	3	78	26	3	10	59	1.46
16423509--16423568	2	30.0	2	93	0	102	48	1	0	50	1.11
16423643--16423694	24	2.2	24	85	0	68	38	3	7	50	1.50
16428058--16428109	24	2.2	24	85	0	68	38	3	7	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16434919--16434971	21	2.5	21	76	11	56	35	5	5	52	1.49
16436727--16436756	14	2.1	14	93	0	51	56	26	0	16	1.40
16437037--16437174	40	3.5	40	87	0	195	32	18	28	21	1.96
16437074--16437174	20	5.1	20	59	4	51	31	18	29	19	1.96
16441388--16441521	61	2.3	58	86	3	196	41	2	2	52	1.32
16445559--16445651	45	2.1	45	82	8	109	24	19	13	41	1.88
16457684--16457722	20	2.0	20	90	10	62	56	10	23	10	1.63
16464660--16464696	15	2.4	16	82	13	51	51	8	10	29	1.65
16472962--16473766	331	2.5	324	84	5	997	35	10	10	44	1.73
16477856--16477886	14	2.2	14	100	0	62	9	19	19	51	1.74
16482861--16483262	197	2.0	200	93	4	695	27	21	18	32	1.96
16493580--16493621	21	2.0	22	90	4	68	26	4	11	57	1.54
16499971--16500000	11	2.7	11	94	0	51	46	0	30	23	1.52
16500347--16500371	8	3.1	8	100	0	50	48	0	0	52	1.00
16511194--16511378	101	1.8	102	88	3	284	27	17	22	32	1.96
16511194--16511326	50	2.7	49	73	10	126	27	19	22	30	1.98
16511193--16511365	51	3.4	50	73	7	161	27	17	23	32	1.96
16520415--16520500	22	3.9	22	84	0	100	29	15	26	29	1.96
16520956--16521003	25	1.9	25	86	0	69	25	27	16	31	1.97
16520965--16521038	25	3.0	25	81	0	67	20	27	18	33	1.96
16521104--16521159	25	2.2	25	80	0	76	25	32	16	26	1.96
16540570--16540602	12	2.8	12	90	0	57	51	0	18	30	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16542310--16542389	42	1.9	42	97	0	151	27	8	33	30	1.87
16554494--16554535	6	7.0	6	100	0	84	66	33	0	0	0.92
16562808--16562855	18	2.6	18	80	6	51	50	4	4	41	1.41
16567503--16567561	30	2.0	30	86	6	84	49	11	6	32	1.66
16577091--16577434	50	6.9	50	88	1	467	21	29	21	27	1.98
16577091--16577523	150	2.9	151	84	5	502	22	29	20	27	1.99
16577489--16577568	42	1.9	41	87	2	115	26	26	20	27	1.99
16582871--16582915	22	2.0	22	95	0	81	37	8	15	37	1.79
16594596--16594708	58	1.9	58	83	1	145	23	19	19	38	1.94
16595173--16595208	18	2.0	18	94	0	63	33	19	11	36	1.87
16595308--16595351	22	2.0	23	86	4	63	40	0	0	59	0.98
16595577--16595643	29	2.3	30	79	7	75	22	16	19	41	1.90
16598883--16599002	49	2.4	50	76	8	129	25	28	5	41	1.76
16599983--16600028	2	23.0	2	100	0	92	50	0	0	50	1.00
16602649--16602693	18	2.2	22	85	14	62	42	4	4	48	1.43
16618283--16618418	40	3.4	40	80	7	161	37	21	20	20	1.94
16618463--16618650	41	4.6	41	77	7	132	21	24	23	30	1.99
16620730--16620781	17	3.0	17	80	8	52	75	1	3	19	1.06
16621842--16621894	28	2.0	27	82	10	65	20	20	11	47	1.81
16622676--16622714	8	4.9	8	90	0	60	5	23	25	46	1.73
16623076--16623122	21	2.2	21	92	0	76	29	17	48	4	1.65
16623263--16623314	19	2.7	19	75	21	54	30	1	7	59	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16623420--16623538	44	2.7	41	76	14	114	36	17	26	19	1.94
16623441--16623546	44	2.4	44	84	7	144	38	18	27	15	1.91
16623471--16623678	86	2.4	86	83	3	249	31	19	27	21	1.97
16623521--16623689	43	4.0	43	91	0	268	29	20	26	23	1.99
16625114--16625208	38	2.5	38	88	5	140	31	17	13	36	1.89
16625241--16625632	191	2.1	191	95	0	705	23	12	29	34	1.92
16628132--16628188	25	2.1	27	81	15	66	29	19	0	50	1.47
16640645--16641097	140	3.2	140	85	4	563	33	20	19	26	1.97
16642830--16642906	20	3.7	21	81	10	70	18	2	14	64	1.39
16643368--16643401	18	1.9	17	88	5	50	29	11	0	58	1.33
16645332--16645545	27	8.0	27	76	9	118	33	24	14	27	1.95
16645413--16645546	53	2.5	53	83	1	169	30	24	15	29	1.96
16647319--16647449	60	2.2	60	84	1	163	38	6	15	40	1.72
16647512--16647549	19	2.0	19	94	0	67	50	31	13	5	1.63
16647956--16648007	2	26.0	2	88	0	77	46	1	1	50	1.23
16650775--16650812	12	3.2	12	89	10	60	23	0	0	76	0.79
16650780--16650812	17	1.9	17	93	0	57	21	0	0	78	0.75
16651652--16651693	22	1.9	22	85	9	59	30	9	14	45	1.77
16652458--16652513	26	2.2	26	100	0	112	48	10	3	37	1.56
16655822--16655961	25	5.6	25	73	6	104	20	24	17	37	1.94
16655815--16656077	50	5.3	49	76	5	199	19	26	20	33	1.96
16655845--16656077	25	9.5	24	73	7	146	18	27	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16655845--16656077	48	4.7	49	75	7	159	18	27	20	33	1.96
16655912--16656049	72	1.9	73	83	1	179	16	28	22	32	1.96
16663668--16663847	24	7.4	24	81	8	177	18	27	23	31	1.97
16663640--16663847	48	4.3	49	77	10	178	18	27	22	30	1.97
16663777--16663858	25	3.3	25	83	8	89	20	30	23	25	1.99
16667925--16667954	13	2.3	13	100	0	60	40	43	0	16	1.48
16668099--16668203	9	11.4	9	75	11	97	21	8	26	42	1.82
16668099--16668191	37	2.5	37	94	0	159	21	8	26	43	1.81
16668871--16668917	19	2.5	19	72	6	51	55	2	2	40	1.24
16669017--16669069	21	2.5	21	93	0	88	30	37	9	22	1.86

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