genome.fa.s6.2.7.7.80.10.50.1000.145.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  145  of  168  ( 20060 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)
42596859--42596883	13	1.9	13	100	0	50	8	0	24	68	1.16
42597127--42597222	28	3.5	28	90	4	151	37	12	1	48	1.48
42597286--42597363	27	2.9	27	83	5	97	28	23	29	19	1.98
42597437--42597475	19	2.1	19	85	4	53	35	7	0	56	1.28
42597726--42597783	2	30.0	2	73	13	50	44	3	3	48	1.36
42598182--42598283	41	2.5	41	90	3	152	27	19	25	27	1.99
42600728--42600753	3	8.7	3	100	0	52	34	0	0	65	0.93
42600757--42600796	20	2.0	20	85	9	55	32	2	2	62	1.22
42602527--42602604	24	3.2	24	92	0	129	19	17	42	20	1.90
42604651--42604823	89	2.0	88	84	1	229	36	22	8	31	1.85
42604859--42604918	19	3.2	18	76	6	57	55	1	1	41	1.20
42604889--42604938	18	2.8	17	85	8	64	56	0	2	42	1.11
42604888--42604977	19	4.9	18	73	14	69	57	1	2	38	1.18
42605226--42605289	19	3.3	18	79	12	65	31	4	3	60	1.32
42626966--42627158	50	3.8	50	90	0	305	20	31	23	25	1.98
42627253--42627283	13	2.4	13	94	0	53	54	12	0	32	1.38
42628291--42628340	23	2.2	23	82	7	57	16	18	6	60	1.55
42634335--42634363	13	2.2	13	100	0	58	51	13	6	27	1.66
42634716--42634745	7	4.3	7	95	0	51	40	30	16	13	1.87
42637536--42637608	33	2.1	34	87	5	103	52	9	1	36	1.43
42637706--42637748	22	2.0	22	85	0	59	44	2	4	48	1.36
42637715--42637775	22	2.7	22	89	5	86	49	1	1	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42646224--42646269	21	2.2	21	100	0	92	41	8	8	41	1.67
42648728--42648770	23	2.0	23	81	9	54	16	16	16	51	1.77
42649934--42649960	5	5.4	5	100	0	54	81	0	0	18	0.69
42652760--42652800	21	2.0	20	85	4	55	46	7	12	34	1.69
42658431--42658455	12	2.1	12	100	0	50	48	0	44	8	1.32
42667171--42667237	29	2.2	31	79	12	77	46	4	1	47	1.31
42668136--42668213	30	2.6	30	75	2	77	34	3	10	51	1.54
42668932--42669124	96	2.0	96	94	0	341	37	25	2	34	1.68
42669160--42669259	10	9.5	10	71	17	69	37	3	1	59	1.20
42669184--42669258	9	8.3	9	68	26	52	40	1	1	57	1.16
42669206--42669255	24	2.1	24	92	3	84	44	0	2	54	1.11
42678944--42679073	31	4.2	30	67	12	84	50	3	14	32	1.59
42683431--42683641	109	1.9	108	86	2	298	30	16	17	36	1.92
42694802--42694892	32	2.8	32	81	5	112	37	9	9	42	1.71
42696653--42696750	22	4.6	22	69	19	64	24	27	3	44	1.68
42696639--42696704	11	5.9	11	75	20	50	24	28	1	45	1.62
42696715--42696739	11	2.3	11	100	0	50	16	28	8	48	1.74
42696664--42696763	51	2.0	50	84	7	130	26	27	3	44	1.69
42698146--42698180	19	1.9	17	88	11	52	65	11	2	20	1.37
42732122--42732204	33	2.5	33	75	7	78	31	18	14	36	1.90
42733631--42733691	29	2.1	29	87	3	86	57	0	6	36	1.25
42744641--42744689	19	2.6	19	79	17	57	48	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42744973--42745635	228	2.9	227	83	2	767	30	26	22	21	1.99
42746871--42747362	245	2.0	245	100	0	984	28	20	15	35	1.93
42763538--42763680	59	2.4	58	85	4	198	23	17	20	38	1.93
42764813--42765041	121	1.9	121	96	0	422	43	1	5	50	1.33
42764973--42765019	18	2.6	18	90	6	69	42	0	0	57	0.98
42764970--42765086	41	2.7	40	73	20	101	43	0	1	53	1.16
42765183--42765235	16	3.3	16	91	0	88	22	32	5	39	1.78
42765806--42765858	23	2.2	24	87	9	74	43	11	11	33	1.76
42768425--42768469	6	7.3	6	80	5	54	44	13	20	22	1.85
42768449--42768553	45	2.3	45	87	6	151	41	17	17	23	1.89
42768753--42768860	40	2.7	41	83	8	116	39	18	7	34	1.79
42768792--42768861	20	3.5	19	74	16	61	41	18	5	34	1.74
42770180--42770364	101	1.8	102	90	3	302	24	18	27	30	1.98
42770174--42770372	51	3.9	50	79	5	222	24	18	28	29	1.98
42770286--42770366	26	3.2	26	64	28	64	25	14	27	32	1.95
42770182--42770372	102	1.9	100	89	3	267	24	18	27	29	1.98
42770368--42770466	46	2.2	43	82	12	119	23	19	25	32	1.97
42770589--42770620	16	2.0	16	93	0	55	59	0	15	25	1.36
42772867--42772900	17	2.0	17	94	0	59	2	14	5	76	1.09
42778550--42778596	22	2.1	22	88	0	67	48	0	2	48	1.13
42778692--42778716	13	1.9	13	100	0	50	44	0	0	56	0.99
42785076--42785117	21	2.0	21	85	0	57	59	11	14	14	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42786793--42786865	25	2.8	25	75	22	71	60	1	10	27	1.39
42788371--42788804	132	3.3	131	91	1	672	26	24	20	29	1.99
42788336--42788804	44	10.8	44	70	10	248	26	24	20	28	1.99
42789068--42789459	87	4.5	87	94	0	680	25	23	22	28	1.99
42789069--42789459	173	2.3	174	94	0	678	25	23	22	28	1.99
42795262--42795344	26	3.2	25	81	6	76	40	33	7	18	1.78
42805278--42805869	113	5.3	112	75	9	497	27	16	19	36	1.93
42805278--42805535	112	2.4	108	83	6	299	25	20	18	34	1.96
42805657--42805863	114	1.9	109	84	5	279	28	15	19	35	1.93
42806897--42806955	19	3.1	19	63	18	50	50	10	1	37	1.46
42806964--42807761	108	7.3	107	79	6	834	30	18	16	33	1.94
42810889--42810919	9	3.4	9	90	0	53	41	22	9	25	1.84
42815547--42815581	15	2.3	15	90	5	52	8	8	0	82	0.83
42843177--42843202	4	6.5	4	100	0	52	0	23	0	76	0.78
42851483--42851515	13	2.4	14	85	10	50	51	0	15	33	1.43
42854428--42854507	39	2.1	39	100	0	160	35	15	20	30	1.93
42875412--42875447	18	2.0	18	100	0	72	55	0	5	38	1.23
42876246--42876293	21	2.2	23	85	7	64	64	4	20	10	1.41
42878450--42878491	11	4.0	11	81	12	52	35	0	2	61	1.09
42878747--42878809	31	2.1	30	90	3	99	55	15	3	25	1.55
42884049--42884087	18	2.2	17	86	13	53	33	0	20	46	1.51
42884192--42884220	8	3.6	8	100	0	58	24	13	27	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42884307--42884382	23	3.3	23	96	0	143	21	21	26	31	1.98
42888007--42888049	18	2.3	19	84	4	52	30	4	2	62	1.28
42888015--42888055	19	2.2	19	86	8	57	29	0	2	68	1.03
42891712--42891763	23	2.3	23	80	6	61	42	0	3	53	1.19
42896404--42896435	9	3.6	9	95	0	55	43	21	9	25	1.82
42896451--42896513	17	3.5	17	69	12	54	49	12	3	34	1.57
42896442--42896516	37	2.0	37	92	0	123	45	13	5	36	1.66
42896648--42896764	39	3.0	39	97	1	218	17	2	29	50	1.60
42896745--42896769	13	1.9	13	100	0	50	12	0	48	40	1.40
42897160--42897282	33	3.7	33	96	0	219	28	15	26	29	1.96
42897157--42897300	66	2.2	65	88	3	216	30	15	25	28	1.96
42898902--42898940	5	8.0	5	97	2	71	41	0	0	58	0.98
42899899--42899979	22	3.5	22	78	11	83	16	23	19	40	1.90
42905493--42905519	4	6.8	4	100	0	54	51	25	0	22	1.48
42909762--42909819	20	3.0	20	71	14	59	27	5	0	67	1.12
42910881--42910922	21	2.0	21	100	0	84	33	19	19	28	1.96
42918744--42918779	2	18.0	2	100	0	72	50	0	0	50	1.00
42926751--42926791	2	20.5	2	100	0	82	51	0	0	48	1.00
42931829--42931867	2	19.5	2	100	0	78	48	0	51	0	1.00
42935306--42935346	22	1.9	22	85	5	57	70	9	4	14	1.30
42937217--42937255	16	2.4	16	82	0	51	51	2	10	35	1.50
42938643--42938691	15	3.4	15	83	10	59	12	6	40	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42939147--42939480	50	6.7	50	70	5	147	26	21	20	31	1.98
42939320--42939700	50	7.6	50	70	5	286	24	21	23	30	1.99
42939190--42939709	199	2.6	200	83	4	622	24	22	21	30	1.99
42939147--42939709	100	5.7	100	83	3	591	25	22	21	31	1.98
42939805--42940487	88	7.8	88	91	0	1105	24	24	24	27	2.00
42940563--42941543	327	3.0	327	96	0	1809	27	20	18	33	1.96
42942370--42942403	7	5.0	7	85	7	52	14	11	0	73	1.10
42942370--42942403	13	2.5	14	90	4	52	14	11	0	73	1.10
42955097--42955144	25	2.0	24	83	4	60	39	18	22	18	1.92
42955107--42955174	24	2.8	24	86	6	84	38	16	23	22	1.93

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