genome.fa.s7.2.7.7.80.10.50.1000.101.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  101  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)
30767226--30767289	17	3.6	17	72	15	58	29	12	10	46	1.76
30767218--30767288	36	2.0	36	88	5	108	29	12	11	46	1.77
30769028--30769070	21	2.0	21	86	8	61	37	18	6	37	1.78
30773907--30773933	2	13.5	2	100	0	54	48	0	0	51	1.00
30775267--30775327	25	2.4	25	94	2	104	37	0	1	60	1.07
30781816--30781845	15	2.1	14	93	6	51	0	10	0	90	0.47
30785950--30785983	18	1.9	18	88	5	52	35	2	5	55	1.39
30785951--30786034	44	1.9	44	87	0	123	39	8	7	45	1.62
30788584--30788631	19	2.5	20	82	6	62	60	0	2	37	1.09
30789178--30789232	22	2.5	21	80	8	56	54	0	1	43	1.10
30792422--30792465	19	2.2	20	84	11	56	72	4	0	22	1.02
30796831--30797036	54	3.8	54	83	1	252	24	14	19	41	1.88
30796831--30797036	81	2.5	81	84	1	270	24	14	19	41	1.88
30796831--30797036	27	7.6	27	81	5	220	24	14	19	41	1.88
30798482--30798584	43	2.4	43	79	11	104	22	18	25	33	1.96
30800527--30800559	2	17.0	2	93	6	59	48	0	0	51	1.00
30808973--30809222	55	4.5	57	79	6	251	31	10	14	44	1.79
30808973--30809188	112	1.9	112	87	1	317	30	10	15	43	1.80
30808973--30809222	112	2.2	112	85	2	315	31	10	14	44	1.79
30811725--30811782	9	6.4	9	88	7	91	25	10	22	41	1.85
30811725--30811791	27	2.5	27	92	0	107	25	8	23	41	1.83
30811725--30811791	18	3.7	18	92	4	91	25	8	23	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30811725--30811791	9	7.4	9	86	0	80	25	8	23	41	1.83
30815321--30815359	18	2.2	18	95	0	69	30	0	28	41	1.57
30822032--30822821	393	2.0	393	86	2	1113	32	19	13	34	1.91
30825585--30825675	25	3.6	25	75	16	80	25	18	20	35	1.96
30830687--30830723	19	1.9	19	94	0	65	43	8	8	40	1.64
30834540--30834588	6	7.7	6	78	13	53	28	4	2	65	1.22
30834540--30834588	13	3.8	12	82	12	53	28	4	2	65	1.22
30834551--30834588	20	1.9	20	88	0	58	28	5	0	65	1.14
30838649--30838895	27	9.2	26	82	7	262	41	19	18	20	1.91
30838649--30838909	54	4.9	53	82	6	312	40	20	18	21	1.92
30839064--30839114	26	2.0	26	92	0	84	15	21	27	35	1.94
30839217--30839275	28	2.1	28	93	0	100	27	27	18	27	1.98
30841183--30841214	10	3.2	10	90	0	55	56	31	3	9	1.47
30843150--30843176	12	2.2	12	100	0	54	14	44	7	33	1.73
30844533--30844575	19	2.2	19	84	12	52	25	34	0	39	1.56
30848118--30848150	17	1.9	17	93	0	57	60	3	0	36	1.12
30861918--30861980	19	3.3	19	79	20	85	20	14	22	42	1.88
30861906--30861980	39	1.9	39	100	0	150	22	13	24	40	1.90
30861906--30861967	20	3.2	20	78	21	85	25	12	22	38	1.90
30862639--30863074	192	2.3	187	79	5	432	35	6	20	37	1.79
30869505--30869530	12	2.2	12	100	0	52	42	7	7	42	1.62
30873547--30873633	38	2.3	39	84	6	115	40	2	6	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30873703--30873736	17	2.0	17	88	0	50	61	2	0	35	1.11
30874543--30874579	5	7.4	5	93	0	65	2	0	56	40	1.13
30887904--30888018	23	4.9	23	82	11	92	20	26	22	30	1.98
30890611--30890661	21	2.5	20	78	15	59	39	27	15	17	1.90
30897605--30897670	31	2.1	31	86	5	89	39	12	22	25	1.89
30900455--30900692	120	2.0	120	90	1	379	26	24	15	33	1.95
30911488--30911574	37	2.4	37	83	9	115	42	26	11	19	1.85
30914041--30914118	37	2.1	37	87	0	111	43	29	11	15	1.82
30918076--30918141	33	2.0	33	100	0	132	30	15	33	21	1.94
30921162--30921399	120	2.0	119	86	0	332	28	23	14	33	1.94
30935355--30935449	42	2.3	41	75	12	95	18	30	24	26	1.98
30935622--30935661	21	1.9	21	85	10	55	40	22	12	25	1.89
30944095--30944139	20	2.1	23	88	12	69	13	8	8	68	1.38
30944171--30944213	21	2.0	23	81	9	54	32	11	11	44	1.77
30948369--30948420	27	1.9	27	92	0	86	26	15	30	26	1.96
30948423--30948483	22	2.8	23	87	7	83	47	4	6	40	1.51
30948483--30948532	10	5.1	10	85	4	75	42	8	16	34	1.77
30948471--30948532	29	2.2	29	97	2	117	46	8	12	32	1.71
30948729--30948923	35	5.6	35	85	1	232	20	23	14	41	1.90
30948729--30948923	69	2.8	69	88	0	255	20	23	14	41	1.90
30982839--30983566	44	16.8	44	68	11	274	28	23	19	28	1.98
30982817--30983561	217	3.4	217	91	0	1168	28	22	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30998086--30998136	24	2.1	25	82	10	61	39	3	0	56	1.18
30998420--30998460	16	2.6	16	84	3	57	31	31	0	36	1.58
31003004--31003050	26	1.9	26	87	12	73	68	8	8	14	1.39
31006717--31006793	38	2.1	37	83	11	95	44	2	2	50	1.29
31030344--31030522	74	2.4	76	80	4	191	45	14	13	26	1.82
31030268--31030540	78	3.6	76	76	7	250	45	14	13	26	1.82
31031448--31031537	35	2.6	35	77	10	94	31	25	15	27	1.96
31033116--31033235	59	2.0	59	96	0	222	36	19	22	21	1.95
31037327--31037380	25	2.2	25	96	0	99	50	3	3	42	1.38
31041326--31041393	22	3.1	22	93	0	109	30	16	27	25	1.96
31043031--31043063	5	6.6	5	92	0	57	36	0	39	24	1.56
31048093--31048162	28	2.5	30	78	13	71	42	22	1	32	1.63
31057159--31057193	15	2.3	15	90	0	52	65	2	2	28	1.21
31059527--31059971	222	2.0	223	97	0	847	34	12	20	32	1.90
31060992--31061033	3	14.0	3	100	0	84	33	0	0	66	0.92
31074250--31074434	51	3.7	50	79	6	169	23	17	27	31	1.97
31074250--31074434	101	1.8	102	88	3	284	23	17	27	31	1.97
31074250--31074442	102	1.9	101	87	3	280	23	17	27	31	1.97
31074438--31074536	46	2.2	43	81	12	110	23	18	25	33	1.97
31074660--31074691	16	2.0	16	93	0	55	59	0	15	25	1.36
31077958--31078024	33	2.0	33	97	0	125	50	11	10	26	1.71
31085743--31085787	3	15.0	3	95	0	81	0	2	33	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31094170--31094213	23	1.9	22	82	17	54	36	25	0	38	1.56
31094266--31094351	45	1.9	45	95	0	154	34	25	13	25	1.93
31094357--31094543	51	3.7	50	74	9	182	32	27	14	25	1.95
31094355--31094539	101	1.8	101	86	5	266	32	27	15	25	1.95
31098186--31098232	18	2.5	20	79	6	62	23	21	6	48	1.72
31099394--31099465	9	7.9	9	81	3	81	0	56	0	43	0.99
31099394--31099463	3	23.0	3	82	2	68	0	58	0	41	0.98
31103914--31103948	14	2.8	12	87	12	52	62	0	8	28	1.24
31105809--31105841	17	1.9	17	93	0	57	24	18	30	27	1.98
31122726--31122750	12	2.1	12	100	0	50	52	32	0	16	1.44
31127350--31127411	29	2.2	29	88	8	94	30	0	1	67	1.00
31130076--31130138	31	2.0	31	96	0	117	38	17	3	41	1.65
31130731--31130851	50	2.4	50	80	0	134	21	28	23	27	1.99
31134317--31134508	56	3.5	56	90	4	288	26	19	27	26	1.99
31134312--31134654	50	6.6	50	81	4	251	29	20	26	23	1.99
31141730--31141760	16	1.9	16	93	0	53	77	3	12	6	1.08
31144503--31144584	23	3.6	23	67	6	67	56	7	18	18	1.64
31144499--31144592	46	2.0	46	100	0	188	57	8	17	17	1.63
31150187--31150221	16	2.3	15	90	5	52	37	2	11	48	1.54
31150881--31150939	31	1.9	31	85	0	82	20	16	10	52	1.72
31151911--31151977	29	2.2	31	84	12	95	50	2	0	46	1.16
31153389--31153426	20	1.9	20	88	0	58	23	0	2	73	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31158094--31158270	89	2.0	89	87	2	257	26	14	19	38	1.91
31171352--31171395	6	7.2	6	89	5	61	77	2	20	0	0.88
31172599--31172647	25	1.9	25	83	4	62	6	16	4	73	1.19
31189640--31189736	51	1.9	51	89	0	149	32	25	18	22	1.97
31196504--31196579	37	2.0	38	82	7	93	50	21	10	18	1.76
31195267--31197561	732	3.1	724	86	4	3068	37	15	12	34	1.85
31200509--31200620	31	3.7	30	79	5	84	32	10	14	42	1.80
31200549--31200620	31	2.4	30	83	4	90	33	11	13	41	1.80
31204104--31204350	27	9.0	26	83	9	289	19	17	20	42	1.89
31204104--31204330	81	2.8	81	89	2	348	19	17	19	43	1.89

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