genome.fa.s8.2.7.7.80.10.50.1000.35.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  35  of  190  ( 22705 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)
9996992--9997068	33	2.3	33	82	10	102	44	1	28	25	1.62
9998590--9998622	14	2.4	14	90	5	50	39	12	15	33	1.84
9998811--9998857	22	2.2	22	85	14	64	68	4	4	23	1.26
9998810--9998844	10	3.4	10	88	4	52	68	2	0	28	1.04
9998810--9998857	20	2.3	22	86	13	66	66	4	4	25	1.27
10000674--10000798	6	24.0	5	78	13	71	23	17	0	59	1.38
10000686--10000742	6	9.8	6	92	5	73	22	24	0	52	1.47
10000677--10000743	29	2.4	29	90	5	102	23	23	0	52	1.48
10000735--10000782	19	2.4	21	89	6	73	25	8	0	66	1.19
10000764--10000804	15	2.7	15	85	14	50	17	12	2	68	1.31
10000850--10000901	19	2.7	19	93	0	86	32	17	1	48	1.58
10000885--10000969	23	3.5	23	76	14	98	31	15	0	52	1.43
10001380--10001680	5	55.4	5	69	21	98	25	15	0	57	1.44
10001380--10001458	22	3.6	22	89	3	115	17	20	1	60	1.43
10001395--10001680	28	10.5	27	70	17	123	26	15	1	57	1.44
10001380--10001462	27	3.1	27	83	13	91	19	19	1	60	1.43
10001424--10001490	22	3.0	22	84	8	73	23	10	0	65	1.23
10002063--10002146	5	15.6	5	82	11	96	19	19	1	60	1.42
10002063--10002148	22	4.0	20	86	8	100	20	18	1	59	1.45
10002063--10002169	27	3.9	26	86	6	133	19	17	0	61	1.40
10002139--10002191	23	2.4	22	81	12	63	22	11	0	66	1.24
10002165--10002272	56	1.9	57	90	5	175	24	16	0	59	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10005610--10005837	33	6.4	33	75	18	215	32	27	20	20	1.97
10005610--10005804	75	2.6	75	95	0	345	31	27	20	21	1.97
10005816--10005869	27	2.0	28	92	3	92	24	29	25	20	1.99
10007804--10007865	29	2.2	28	85	2	79	24	14	17	43	1.86
10015407--10015674	44	6.2	44	71	18	172	29	21	22	27	1.99
10015453--10015741	126	2.3	129	82	9	335	29	20	22	28	1.98
10017065--10017103	14	2.9	13	88	11	53	28	2	7	61	1.37
10021841--10021894	25	2.2	25	83	6	65	20	14	9	55	1.66
10022675--10022754	16	4.9	16	78	17	67	83	5	11	0	0.78
10022676--10022752	10	6.8	11	78	21	54	84	3	11	0	0.75
10022693--10022753	5	11.8	5	81	13	61	83	1	14	0	0.72
10022676--10022753	18	3.9	20	85	9	72	84	3	11	0	0.74
10022676--10022736	1	61.0	1	73	0	50	86	4	8	0	0.69
10023269--10023310	7	6.0	7	86	8	59	71	0	14	14	1.15
10023253--10023310	15	3.8	15	80	19	59	70	1	13	13	1.24
10024466--10025344	88	10.0	88	92	0	1382	27	18	25	28	1.98
10025742--10025905	42	3.9	41	74	8	116	29	22	22	25	1.99
10025748--10025854	40	2.6	42	80	12	114	29	22	24	23	1.99
10025698--10025991	126	2.3	129	79	9	318	30	19	22	27	1.98
10027305--10027345	14	3.1	13	86	13	57	29	2	7	60	1.36
10027307--10027347	16	2.5	16	88	4	55	31	2	4	60	1.30
10030271--10030297	14	1.9	14	100	0	54	37	11	14	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10030903--10030956	24	2.3	23	75	15	56	25	0	11	62	1.28
10031375--10031434	19	3.1	18	79	15	50	50	1	1	46	1.21
10033128--10033203	38	2.0	38	100	0	152	36	13	15	34	1.87
10036929--10036954	13	2.0	13	100	0	52	46	0	7	46	1.31
10038039--10038105	27	2.5	27	85	0	89	8	32	32	25	1.87
10040702--10040741	20	2.0	20	100	0	80	35	30	15	20	1.93
10054859--10054891	10	3.4	10	91	4	50	57	0	0	42	0.98
10059077--10059157	29	2.8	29	76	0	81	19	23	16	40	1.90
10060753--10060796	22	2.0	23	90	4	72	68	9	0	22	1.18
10064676--10064700	2	12.5	2	100	0	50	0	48	0	52	1.00
10065532--10065565	17	1.9	18	88	5	52	52	2	11	32	1.53
10073220--10073286	23	2.8	23	80	8	62	61	1	2	34	1.20
10073241--10073284	17	2.6	16	82	7	52	63	0	2	34	1.07
10082480--10082583	30	3.4	30	67	13	77	38	1	21	38	1.64
10089558--10089588	9	3.4	9	90	0	53	38	22	12	25	1.90
10090487--10090543	29	2.0	29	86	6	80	42	14	8	35	1.76
10096970--10097027	18	3.2	19	79	13	68	18	1	24	55	1.52
10102485--10102562	22	3.5	22	94	0	138	32	29	0	38	1.58
10102534--10102592	30	2.0	30	93	0	100	30	35	0	33	1.58
10102512--10102614	52	2.0	51	86	5	145	33	33	0	33	1.58
10102564--10102605	22	1.9	22	90	0	66	33	33	0	33	1.58
10102648--10102703	29	2.0	29	86	10	80	37	1	1	58	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10102817--10102850	15	2.3	15	90	5	52	26	0	5	67	1.13
10102815--10102872	24	2.3	23	78	21	64	27	0	5	67	1.12
10105003--10105655	23	26.8	23	75	20	525	47	21	1	30	1.59
10104984--10105647	51	13.5	51	80	15	728	47	21	1	29	1.59
10104984--10105374	28	14.9	28	82	14	503	46	21	1	30	1.58
10105294--10105655	91	4.0	91	75	16	381	47	20	1	29	1.61
10105238--10105655	68	6.0	67	79	14	345	47	21	1	29	1.61
10105368--10105405	17	2.2	17	90	0	58	52	18	2	26	1.58
10105389--10105495	28	4.2	28	74	22	117	45	20	0	32	1.58
10105482--10105519	17	2.2	17	100	0	76	52	15	0	31	1.43
10105550--10105587	17	2.2	17	95	0	67	52	15	2	28	1.56
10105587--10105647	28	2.2	28	88	5	88	44	26	1	27	1.64
10113871--10113959	27	3.3	27	82	0	106	35	23	10	30	1.88
10115666--10115811	41	3.6	41	93	0	229	30	24	19	25	1.98
10115666--10115838	82	2.1	82	84	2	222	30	24	18	26	1.98
10123546--10123591	18	2.8	17	78	15	53	0	28	41	30	1.56
10124870--10124916	3	16.3	3	86	8	71	63	0	36	0	0.94
10124858--10124913	17	3.5	16	83	14	71	62	0	37	0	0.95
10124870--10124920	20	2.6	20	93	3	86	64	0	35	0	0.94
10124870--10124929	20	3.2	20	88	6	72	68	0	31	0	0.90
10125029--10125053	7	3.6	7	100	0	50	40	0	0	60	0.97
10125085--10125416	22	15.0	21	70	21	164	31	0	12	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10125109--10125165	19	2.9	19	86	2	78	33	0	14	52	1.41
10125210--10125270	19	3.1	19	82	13	86	32	0	13	54	1.39
10125219--10125443	27	9.1	25	76	20	217	32	0	12	54	1.44
10125309--10125333	8	3.1	8	100	0	50	28	0	12	60	1.32
10125219--10125438	97	2.3	98	94	0	388	32	0	12	54	1.44
10125365--10125422	22	2.9	19	71	14	53	34	1	12	51	1.49
10125219--10125438	49	4.5	49	90	1	352	32	0	12	54	1.44
10125484--10125605	60	2.0	60	84	3	156	29	0	14	54	1.46
10125639--10125720	38	2.2	38	95	0	146	54	2	2	40	1.26
10125757--10125798	16	2.7	15	85	7	57	38	2	2	57	1.25
10127424--10127473	6	8.3	6	93	0	82	32	34	34	0	1.58
10130735--10130777	22	2.0	22	90	0	68	0	30	0	69	0.88
10130737--10130774	18	2.2	17	95	4	67	0	31	0	68	0.90
10130846--10130948	27	3.8	27	87	2	136	19	35	25	19	1.95
10135894--10135934	3	13.7	3	85	10	57	31	2	0	65	1.05
10135960--10136024	22	2.8	23	75	17	71	35	6	4	53	1.46
10135960--10136024	24	2.8	24	75	13	73	35	6	4	53	1.46
10135989--10136060	30	2.4	28	80	11	74	34	9	8	47	1.67
10135948--10136054	51	2.0	51	87	5	151	32	9	7	50	1.62
10137524--10137555	3	10.7	3	100	0	64	34	0	0	65	0.93
10138710--10138734	2	12.5	2	100	0	50	52	0	0	48	1.00
10138796--10138841	16	2.8	16	84	15	67	45	4	4	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10141581--10141676	41	2.3	41	94	0	165	22	23	17	35	1.95
10150822--10150846	5	5.0	5	100	0	50	40	20	20	20	1.92
10157018--10157509	246	2.0	247	93	0	842	42	11	16	29	1.84
10157590--10157653	21	3.1	20	75	8	67	31	7	12	48	1.69
10174162--10174201	22	1.9	21	85	10	55	47	20	2	30	1.63
10174688--10174852	34	4.8	36	77	9	173	37	25	19	17	1.93
10174685--10174907	69	3.2	69	85	1	288	33	25	21	19	1.97
10178005--10178045	18	2.3	18	80	12	50	24	0	2	73	0.96
10183325--10183411	42	2.1	42	84	0	111	27	20	17	34	1.95
10189151--10189192	15	2.7	16	82	10	52	59	9	23	7	1.53

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