genome.fa.s8.2.7.7.80.10.50.1000.81.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  81  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)
23428262--23428350	46	2.0	44	83	14	112	16	6	21	55	1.64
23428288--23428350	23	2.7	23	81	16	85	15	6	20	57	1.61
23428671--23428708	2	19.0	2	88	0	58	44	5	0	50	1.24
23429161--23429224	31	2.1	31	96	0	119	32	15	0	51	1.44
23429267--23429355	37	2.4	37	96	0	169	44	13	6	34	1.70
23429415--23429480	29	2.2	29	79	12	89	40	15	6	37	1.72
23432503--23432710	91	2.3	91	91	0	326	45	3	5	46	1.42
23432625--23432685	28	2.2	28	85	5	81	45	0	3	50	1.17
23432543--23432685	44	3.2	43	67	20	103	44	2	4	48	1.36
23432740--23432776	14	2.5	16	83	16	53	48	0	0	51	1.00
23434460--23434525	13	5.1	13	81	0	78	36	21	7	34	1.82
23434673--23434706	18	1.9	18	88	5	52	32	8	20	38	1.84
23434843--23434946	26	3.7	26	72	20	91	3	35	16	44	1.66
23440545--23440646	41	2.5	41	87	3	143	27	18	25	28	1.98
23440821--23440846	2	13.0	2	100	0	52	50	0	0	50	1.00
23441641--23441688	18	2.7	18	90	0	78	35	12	10	41	1.77
23442118--23442251	71	1.9	72	88	1	207	21	6	14	56	1.61
23444338--23444388	26	2.0	26	84	0	66	39	21	5	33	1.78
23446206--23446238	2	16.5	2	93	0	57	51	0	0	48	1.00
23448075--23448174	43	2.3	43	94	0	173	23	31	20	26	1.98
23448526--23448572	21	2.2	21	96	0	85	2	46	19	31	1.61
23451101--23451176	21	3.8	20	73	16	68	36	39	5	18	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23451722--23451881	41	3.9	40	84	4	212	30	26	22	20	1.98
23451722--23451881	82	2.0	82	88	2	241	30	26	22	20	1.98
23451916--23452027	40	2.8	40	78	9	113	24	20	20	34	1.96
23453200--23453245	22	2.1	22	88	8	67	43	13	2	41	1.55
23458085--23458114	13	2.4	12	94	5	51	33	0	33	33	1.58
23465276--23465335	18	3.1	20	75	13	63	15	6	1	76	1.06
23468883--23468909	14	1.9	14	100	0	54	44	0	14	40	1.46
23469428--23469479	16	3.4	15	74	10	52	48	0	0	51	1.00
23469438--23469485	16	3.0	16	75	6	53	52	0	0	47	1.00
23469460--23469553	31	3.0	31	77	14	86	53	0	1	45	1.07
23480958--23481019	26	2.5	26	84	7	85	38	6	17	37	1.76
23481120--23481169	23	2.2	22	82	3	64	34	6	2	58	1.34
23481347--23481377	16	1.9	16	93	0	53	29	0	6	64	1.18
23481662--23481706	7	6.7	7	87	7	67	73	2	0	24	0.95
23490210--23490256	12	3.2	16	69	25	50	61	4	2	31	1.27
23502448--23502473	9	2.9	9	100	0	52	69	11	0	19	1.18
23502423--23502464	21	1.9	23	85	9	61	64	16	0	19	1.30
23509848--23509884	19	1.9	19	89	10	58	32	0	21	45	1.52
23527639--23527685	9	5.2	9	85	10	69	29	12	0	57	1.36
23534221--23534254	17	2.0	17	100	0	68	76	0	0	23	0.79
23535639--23535748	47	2.4	44	77	15	114	49	3	3	43	1.37
23545531--23545683	76	2.0	76	96	0	279	48	14	9	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23562990--23563014	3	8.3	3	100	0	50	0	32	0	68	0.90
23563899--23563980	25	3.3	25	77	3	85	26	18	18	36	1.94
23569145--23569198	21	2.6	20	80	8	63	29	9	31	29	1.88
23576635--23576765	44	3.0	44	72	6	131	25	23	19	30	1.98
23576623--23576781	87	1.8	87	90	0	255	23	23	20	32	1.98
23576622--23576742	44	2.8	44	73	6	120	23	24	22	29	1.99
23576803--23577413	44	13.8	44	91	1	997	22	28	21	27	1.99
23576803--23577413	133	4.6	132	92	0	997	22	28	21	27	1.99
23576770--23577413	177	3.6	177	91	0	1020	22	28	21	27	1.99
23578674--23578710	13	2.6	15	83	12	51	13	18	0	67	1.23
23591356--23591416	24	2.5	24	83	2	68	37	9	6	45	1.63
23591364--23591425	24	2.5	25	84	5	81	40	8	6	45	1.59
23591412--23591443	2	16.0	2	100	0	64	50	0	0	50	1.00
23597503--23598587	134	8.2	133	84	4	1053	29	16	23	30	1.96
23597503--23598581	89	12.2	90	80	4	878	29	16	23	30	1.96
23597503--23598580	45	24.4	45	78	4	780	29	16	23	30	1.96
23598160--23598590	44	9.7	44	79	3	364	29	15	23	31	1.95
23599811--23599866	2	28.5	2	89	3	87	48	1	1	48	1.22
23608950--23609004	14	4.0	14	72	9	51	63	0	3	32	1.12
23610497--23610555	27	2.2	27	100	0	118	35	13	15	35	1.87
23611123--23611212	45	2.0	45	91	0	144	34	15	12	37	1.85
23611967--23612043	34	2.2	34	81	6	84	33	5	14	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23614787--23614825	18	2.2	18	90	0	60	48	2	25	23	1.63
23616609--23616732	43	2.9	41	73	4	113	30	14	21	33	1.93
23617362--23617444	26	3.3	25	79	16	66	22	25	20	31	1.98
23621447--23621482	15	2.4	15	85	0	54	33	16	13	36	1.89
23622179--23622242	32	2.0	32	100	0	128	25	15	28	31	1.96
23626113--23626147	18	1.9	18	94	0	61	5	0	28	65	1.15
23631756--23631992	122	1.9	122	92	0	393	30	23	18	26	1.98
23633281--23633322	16	2.7	16	82	10	52	11	16	0	71	1.14
23633277--23633322	15	3.1	15	81	12	51	13	19	0	67	1.23
23633802--23633860	1	59.0	1	79	0	64	0	0	10	89	0.47
23633802--23633860	9	6.3	9	86	9	75	0	0	10	89	0.47
23633805--23633861	21	2.7	21	91	2	87	0	0	12	87	0.54
23636527--23636561	16	2.2	16	89	0	52	42	20	14	22	1.88
23641429--23641474	4	11.5	4	95	0	83	47	26	2	23	1.63
23643819--23643846	13	2.2	13	100	0	56	50	0	0	50	1.00
23644074--23644107	2	17.0	2	100	0	68	50	0	0	50	1.00
23648335--23648360	11	2.4	11	100	0	52	7	7	0	84	0.77
23648521--23648550	10	3.0	10	100	0	60	60	0	0	40	0.97
23652413--23652473	26	2.3	26	88	5	88	37	0	1	60	1.07
23654851--23654958	37	3.0	33	74	16	90	50	3	2	42	1.34
23654857--23654911	25	2.2	25	81	12	60	49	5	1	43	1.36
23656768--23656797	15	2.0	15	100	0	60	26	33	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23660942--23661023	26	3.1	27	85	7	105	37	17	21	23	1.93
23660960--23661134	27	6.7	27	79	10	150	34	16	21	26	1.95
23660986--23661140	54	2.9	55	82	8	189	32	18	21	27	1.97
23660986--23661142	27	6.0	26	79	10	151	32	18	21	27	1.97
23661251--23661481	32	7.2	32	70	17	117	20	19	22	38	1.94
23661314--23661454	64	2.2	64	87	2	194	19	19	23	37	1.94
23661530--23661580	26	2.0	26	88	0	75	23	27	15	33	1.95
23664785--23664832	25	1.9	25	83	8	62	41	6	8	43	1.60
23669793--23669851	16	3.4	17	76	9	57	69	1	1	27	1.07
23669809--23669860	16	3.2	16	71	12	52	69	3	0	26	1.06
23669793--23669867	34	2.3	33	80	19	95	68	2	2	26	1.17
23669793--23669860	33	2.0	34	88	8	104	69	2	1	26	1.12
23674654--23674703	14	3.6	14	83	8	66	74	8	4	14	1.20
23674746--23674795	14	3.6	14	91	0	82	72	0	8	20	1.10
23674746--23674796	15	3.5	15	86	10	79	72	0	7	19	1.08
23675816--23675870	24	2.3	24	83	0	65	65	3	18	12	1.40
23680045--23680074	16	1.9	16	93	6	53	50	20	0	30	1.49
23682560--23682600	21	2.0	21	85	0	55	26	26	14	31	1.95
23685378--23685410	16	2.1	16	94	0	57	39	6	33	21	1.78
23685392--23685484	44	2.1	46	93	4	163	27	4	31	36	1.76
23685392--23685497	39	2.5	44	85	11	141	29	3	32	34	1.75
23685590--23685668	26	3.0	26	70	5	70	53	2	0	44	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23685640--23685690	16	3.0	17	91	5	77	56	1	1	39	1.22
23696334--23696375	20	2.1	20	100	0	84	33	28	16	21	1.95
23696532--23696574	18	2.3	19	84	15	54	30	6	2	60	1.35
23699498--23699722	90	2.4	92	83	8	260	46	12	7	33	1.70
23700536--23700564	14	2.1	14	93	6	51	82	13	0	3	0.79
23700892--23700978	44	2.0	44	95	0	156	49	20	11	18	1.78
23702012--23702093	32	2.6	29	78	17	76	41	10	9	37	1.73
23702073--23702154	28	2.6	32	83	11	91	47	18	2	31	1.61
23706997--23707679	342	2.0	342	99	0	1357	30	20	15	33	1.94
23712790--23712865	34	2.2	34	95	0	134	35	7	10	46	1.68

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