genome.fa.s7.2.7.7.80.10.50.1000.47.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   203   204   

This is table  47  of  204  ( 24458 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)
15676749--15676816	22	3.3	21	84	8	86	39	19	11	29	1.87
15681717--15681811	40	2.3	40	83	5	120	21	34	15	28	1.94
15692098--15692140	17	2.4	18	88	7	61	62	0	0	37	0.95
15693780--15693873	9	10.4	9	88	0	134	23	9	24	42	1.84
15695660--15695697	19	2.1	18	90	5	58	57	7	0	34	1.28
15696150--15696184	18	1.9	18	94	0	61	0	14	8	77	0.99
15705068--15705137	31	2.3	31	80	5	79	40	10	14	35	1.79
15715624--15715691	30	2.3	28	78	12	73	61	4	4	29	1.35
15716707--15716836	55	2.3	56	85	1	190	26	16	28	27	1.97
15717392--15717438	21	2.2	21	96	0	85	38	4	4	53	1.40
15717302--15717550	110	2.3	110	95	0	444	32	5	10	51	1.59
15717502--15717564	21	2.9	21	90	7	90	33	6	4	55	1.46
15717605--15717638	18	1.9	17	88	5	50	26	0	11	61	1.30
15718334--15718389	15	3.6	16	74	16	55	53	0	3	42	1.18
15719858--15719933	23	3.4	23	85	10	113	21	21	22	35	1.96
15724503--15724551	19	2.6	19	87	3	64	40	4	4	51	1.40
15724765--15724797	9	3.8	9	88	8	50	30	3	0	66	1.06
15724752--15724925	47	3.6	47	81	12	210	40	6	0	52	1.33
15724883--15724957	34	2.3	33	90	4	116	38	8	2	50	1.46
15728655--15728703	24	2.0	24	96	0	89	24	12	26	36	1.91
15729125--15729154	15	2.0	15	100	0	60	20	26	26	26	1.99
15736857--15736888	15	2.1	15	94	0	55	68	3	6	21	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15738048--15738082	15	2.4	15	90	4	54	48	0	8	42	1.33
15740169--15740204	15	2.5	14	86	8	54	44	8	0	47	1.33
15744133--15744159	14	1.9	14	100	0	54	51	7	18	22	1.70
15748972--15748998	14	1.9	14	100	0	54	51	7	18	22	1.70
15750910--15750947	3	12.7	3	94	0	67	31	0	65	2	1.06
15753881--15753913	17	1.9	17	93	0	57	24	3	6	66	1.28
15755088--15755118	15	2.1	15	100	0	62	38	6	32	22	1.80
15759411--15759441	15	2.1	15	100	0	62	38	6	32	22	1.80
15759937--15760095	53	3.0	53	100	0	318	32	22	11	33	1.90
15760571--15760663	43	2.2	43	84	3	116	17	24	31	26	1.97
15761064--15761137	36	2.1	36	100	0	148	31	8	25	35	1.85
15765788--15765830	21	2.0	22	86	13	63	44	0	13	41	1.44
15765788--15765831	20	2.1	21	84	12	56	45	0	13	40	1.44
15765874--15766088	64	3.4	66	78	9	189	34	7	17	40	1.77
15765908--15766060	64	2.4	64	87	3	209	33	7	18	40	1.78
15766218--15766306	41	2.2	41	95	0	160	24	16	22	35	1.95
15766218--15766322	41	2.6	41	90	3	149	22	17	24	35	1.95
15767905--15767939	13	2.7	13	90	0	52	5	37	31	25	1.80
15768506--15768534	2	14.5	2	100	0	58	51	0	0	48	1.00
15769068--15769128	25	2.4	25	97	0	113	34	22	27	14	1.94
15774624--15774657	15	2.3	15	94	0	59	35	0	8	55	1.31
15776172--15776202	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15776256--15776292	9	4.1	9	85	0	56	48	13	8	29	1.71
15776567--15776626	30	2.0	31	83	9	79	20	38	0	41	1.52
15776883--15776942	17	3.6	16	72	14	50	31	3	8	56	1.45
15777390--15777417	5	5.6	5	100	0	56	17	21	17	42	1.89
15778751--15779053	51	6.6	44	75	19	278	30	15	23	31	1.95
15778758--15778915	51	3.1	51	97	0	289	32	14	22	30	1.94
15778867--15778953	37	2.4	37	98	0	165	31	14	18	35	1.91
15778765--15779047	132	2.1	137	89	4	432	30	15	22	31	1.95
15778867--15778989	37	3.1	37	85	11	138	29	14	20	35	1.92
15789297--15789339	3	14.3	3	85	0	59	60	2	4	32	1.30
15791921--15791952	12	2.7	12	95	0	55	34	21	15	28	1.94
15795081--15795148	34	2.0	34	100	0	136	44	8	14	32	1.76
15807959--15808030	30	2.3	32	77	13	78	43	4	6	45	1.50
15809121--15809229	54	2.0	54	100	0	218	40	19	22	18	1.92
15811789--15811831	12	3.6	12	77	22	54	27	4	0	67	1.10
15811779--15811837	24	2.5	24	97	2	111	30	3	0	66	1.08
15818190--15818422	48	4.9	48	93	0	331	20	16	42	21	1.89
15827951--15828049	50	2.0	51	93	2	173	33	18	17	31	1.94
15830000--15830035	13	2.8	13	91	0	63	25	11	25	38	1.88
15830551--15830594	22	2.0	21	91	4	70	40	4	13	40	1.65
15832348--15832389	21	2.0	20	86	4	57	69	9	14	7	1.37
15836320--15836365	13	3.1	15	75	15	51	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15841530--15841613	3	28.0	3	97	0	159	33	1	0	65	1.00
15844204--15844287	42	2.0	42	83	0	105	23	7	25	44	1.79
15846061--15846198	11	13.6	11	74	19	99	38	2	0	59	1.10
15846063--15846205	40	3.5	41	82	12	172	37	2	0	60	1.09
15846132--15846188	28	2.0	28	89	3	87	38	1	0	59	1.08
15846144--15846177	17	2.0	17	88	0	50	35	0	0	64	0.94
15846150--15846213	22	3.0	20	73	10	65	39	1	0	59	1.07
15846181--15846220	21	1.9	21	89	0	62	37	2	0	60	1.11
15846180--15846234	21	2.5	20	80	13	56	38	1	3	56	1.28
15865738--15865762	7	3.6	7	100	0	50	76	0	0	24	0.80
15866475--15866620	41	3.5	41	85	1	202	41	17	25	15	1.89
15866886--15866923	13	3.0	13	88	3	51	39	2	0	57	1.12
15867758--15867788	11	2.7	11	95	5	53	6	19	3	70	1.22
15870609--15870797	59	3.2	59	73	11	213	41	0	3	54	1.22
15870637--15870819	59	3.0	60	71	15	178	41	1	4	52	1.30
15870719--15870848	18	7.7	17	68	20	76	39	0	3	56	1.20
15870655--15870838	41	4.6	40	65	21	107	40	1	4	53	1.29
15876651--15876694	17	2.6	16	82	7	52	31	2	11	54	1.48
15877523--15877560	16	2.4	16	84	16	53	21	0	5	73	1.02
15882750--15882813	13	4.9	13	92	0	110	31	7	23	37	1.83
15885991--15886023	16	2.1	16	88	11	50	57	0	12	30	1.35
15887031--15887073	17	2.6	16	82	7	59	32	0	2	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15887044--15887090	22	2.1	22	84	11	60	36	2	2	59	1.21
15887557--15887612	20	2.8	20	79	12	60	64	1	0	33	1.04
15887576--15887629	25	2.2	24	83	3	63	64	0	1	33	1.04
15888157--15888200	15	3.1	15	80	6	56	59	0	0	40	0.98
15888385--15888436	19	2.8	18	73	21	54	53	0	7	38	1.30
15890799--15890839	22	1.9	22	85	5	57	7	7	12	73	1.25
15893710--15894017	167	1.8	167	92	0	517	33	21	7	37	1.81
15894009--15894045	7	5.3	7	100	0	74	29	27	0	43	1.55
15899473--15899556	42	2.0	42	85	0	114	23	39	16	20	1.92
15899780--15899821	2	21.0	2	100	0	84	50	0	0	50	1.00
15904686--15904724	18	2.1	19	85	4	53	69	5	0	25	1.09
15904888--15904912	13	1.9	13	100	0	50	84	0	16	0	0.63
15905283--15906193	154	5.9	155	81	10	997	52	6	10	30	1.61
15905922--15905949	5	5.6	5	100	0	56	78	0	0	21	0.75
15905283--15906194	468	2.0	458	87	6	1304	52	6	10	30	1.61
15907110--15907465	160	2.2	160	96	0	667	40	10	8	41	1.69
15907110--15907465	77	4.5	77	91	6	568	40	10	8	41	1.69
15910364--15910570	39	5.3	38	70	17	111	50	11	4	33	1.57
15910437--15910483	23	2.0	23	84	8	60	59	14	2	23	1.46
15910391--15910575	40	4.7	40	70	18	136	50	10	4	34	1.59
15910804--15910872	3	24.3	3	78	11	58	1	30	0	68	0.99
15910798--15910827	15	2.0	15	100	0	60	6	40	0	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15910819--15910865	13	3.7	13	91	2	78	0	23	0	76	0.78
15910823--15910867	16	2.8	16	89	0	72	0	22	0	77	0.76
15911412--15911479	30	2.3	30	80	12	77	27	7	23	41	1.81
15915932--15915999	30	2.3	30	85	12	95	27	8	23	39	1.84
15917879--15917921	17	2.6	17	82	10	54	62	2	0	34	1.08
15920167--15920228	29	2.1	28	85	5	79	37	4	12	45	1.64
15920669--15920706	19	2.2	18	86	13	53	55	0	2	42	1.14
15925260--15925330	31	2.3	31	80	7	81	21	12	19	46	1.83
15930028--15930439	109	3.8	108	89	3	639	33	18	17	30	1.94
15930042--15930445	217	1.9	218	95	1	740	33	18	17	31	1.94

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   203   204