genome.fa.s8.2.7.7.80.10.50.1000.104.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  104  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)
31607996--31608027	4	7.8	4	96	3	55	21	0	3	75	0.95
31608077--31608107	15	2.0	16	93	6	55	19	9	6	64	1.45
31608168--31608489	109	3.0	109	86	2	445	31	16	17	35	1.92
31610147--31610197	20	2.5	20	78	12	59	50	0	25	23	1.49
31613148--31613242	45	2.1	44	88	1	136	32	6	27	33	1.82
31613403--31613437	18	2.0	17	88	5	52	54	0	0	45	0.99
31613297--31613604	155	2.0	157	93	1	530	44	3	5	47	1.42
31613547--31613588	15	2.9	15	82	10	52	50	0	0	50	1.00
31613536--31613833	120	2.5	121	90	4	460	49	5	2	42	1.39
31613657--31613708	15	3.6	15	80	12	56	53	1	0	44	1.11
31613881--31614024	47	3.1	46	67	16	127	51	4	1	42	1.32
31613849--31614037	91	2.1	91	91	0	306	49	4	2	43	1.33
31613830--31614016	44	4.1	43	70	16	128	49	3	2	44	1.32
31613899--31614037	47	3.0	47	69	17	146	50	5	1	43	1.33
31615448--31615474	11	2.5	11	100	0	54	51	18	7	22	1.70
31617814--31617838	12	2.1	12	100	0	50	40	0	0	60	0.97
31623099--31623175	32	2.3	34	79	16	90	48	0	2	49	1.15
31623160--31623234	28	2.6	28	74	17	73	41	1	2	54	1.23
31623208--31623295	10	8.5	10	73	10	52	39	4	1	54	1.28
31623209--31623294	20	4.2	20	73	16	70	40	4	1	53	1.29
31626358--31626388	15	2.1	15	93	0	53	48	0	9	41	1.36
31638346--31638935	44	13.6	44	72	12	294	28	20	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31638301--31638960	217	3.0	217	92	0	1086	29	20	22	28	1.98
31639182--31639265	44	1.9	44	85	0	114	33	19	19	28	1.96
31640691--31640716	2	13.0	2	100	0	52	50	0	0	50	1.00
31643588--31643620	17	1.9	17	88	11	50	15	3	18	63	1.43
31648276--31648318	21	2.0	21	86	8	61	34	0	6	58	1.25
31648301--31648461	58	2.8	57	83	7	175	43	1	3	50	1.30
31648630--31648668	16	2.4	16	91	0	60	41	17	0	41	1.50
31654232--31654262	16	1.9	16	93	0	53	9	6	9	74	1.23
31655916--31655973	25	2.3	26	82	11	68	44	1	5	48	1.35
31655931--31655989	29	2.0	29	83	6	73	40	3	5	50	1.41
31664990--31665054	25	2.6	25	80	4	69	40	16	7	35	1.78
31665388--31665431	18	2.5	17	78	10	52	40	15	2	40	1.60
31666927--31666991	25	2.6	25	80	0	76	32	16	15	35	1.91
31667324--31667367	18	2.5	17	78	10	52	40	15	2	40	1.60
31668310--31668344	18	2.0	18	94	5	63	14	45	28	11	1.79
31673954--31673999	18	2.6	18	80	10	58	4	28	0	67	1.10
31676658--31676732	36	2.1	35	83	11	91	38	2	4	54	1.33
31676667--31676792	62	2.1	58	84	7	155	41	3	5	50	1.42
31678148--31678323	73	2.4	73	87	2	248	24	25	26	23	2.00
31678326--31678507	101	1.8	101	81	2	231	25	21	25	28	1.99
31678420--31678760	114	3.0	112	82	5	425	25	22	25	26	2.00
31678420--31678756	113	3.0	113	82	3	426	25	21	24	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31678654--31678834	73	2.5	73	78	7	188	26	22	23	28	1.99
31679213--31679272	21	2.9	21	74	0	57	26	0	23	50	1.50
31679247--31679281	14	2.5	14	85	0	52	17	0	34	48	1.47
31679255--31679279	7	3.6	7	100	0	50	16	0	36	48	1.46
31679625--31679688	15	4.3	15	80	11	78	15	1	39	43	1.56
31679628--31679688	7	8.3	7	82	10	77	16	1	37	44	1.58
31679726--31679758	16	2.1	16	88	5	50	57	6	0	36	1.23
31680088--31680555	114	4.1	114	94	0	812	26	16	22	35	1.94
31680463--31680651	97	1.9	97	91	0	306	26	17	20	34	1.95
31680839--31681187	173	2.0	175	93	1	594	23	40	10	26	1.86
31682232--31682290	9	6.8	9	73	5	50	49	20	1	28	1.59
31682330--31682380	19	2.9	17	79	5	57	41	0	3	54	1.19
31682403--31682753	9	39.7	9	72	17	238	45	16	0	36	1.54
31682404--31682753	16	21.9	16	72	19	191	45	16	0	36	1.54
31682404--31682753	25	14.6	25	71	17	203	45	16	0	36	1.54
31682574--31682643	12	6.0	12	70	18	58	44	15	0	40	1.47
31682490--31682662	30	6.0	30	72	21	120	43	15	1	39	1.57
31682432--31682741	114	2.9	108	82	10	368	45	16	0	37	1.54
31682429--31682746	110	2.9	110	76	13	312	45	16	0	36	1.54
31684551--31684601	21	2.4	21	90	6	77	39	17	41	1	1.61
31685048--31685168	42	2.8	44	87	6	176	23	22	19	34	1.96
31686024--31686090	29	2.3	27	76	14	62	49	5	2	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31687917--31688085	9	17.3	9	70	17	63	63	5	2	28	1.30
31687920--31688085	19	8.6	19	65	21	60	63	6	2	28	1.31
31693174--31693263	44	2.0	44	95	0	162	40	11	23	25	1.87
31693287--31693533	50	4.9	50	85	0	323	25	22	30	21	1.99
31699083--31699172	44	2.0	44	91	4	146	40	10	24	25	1.86
31699196--31699334	49	2.8	50	86	2	208	26	19	32	21	1.97
31699195--31699379	50	3.7	49	80	4	201	28	19	29	22	1.98
31704816--31704894	39	2.0	39	97	0	149	35	17	21	25	1.95
31706092--31706148	21	2.7	21	80	0	78	24	22	29	22	1.99
31708264--31708314	20	2.7	20	85	8	72	43	0	1	54	1.11
31708265--31708317	12	4.3	12	72	13	54	43	0	1	54	1.11
31709043--31709101	22	2.7	22	97	0	109	33	13	27	25	1.93
31711718--31711785	33	2.1	33	81	10	77	39	16	19	25	1.91
31712371--31712402	15	2.1	15	94	0	55	15	6	9	68	1.36
31713770--31713802	13	2.3	15	90	10	52	57	0	3	39	1.14
31714280--31714396	59	1.9	61	84	5	157	41	4	4	50	1.41
31715346--31715370	12	2.1	12	100	0	50	76	0	8	16	1.02
31716221--31716309	25	3.1	30	83	15	109	41	6	25	25	1.80
31720881--31720969	25	3.1	30	84	12	116	41	7	24	25	1.82
31738761--31738811	25	2.0	25	81	7	59	11	33	0	54	1.37
31744100--31744149	24	2.1	24	92	0	82	52	4	6	38	1.45
31745976--31746033	25	2.3	25	80	8	73	53	1	5	39	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31747731--31747763	16	2.0	17	88	5	50	51	18	3	27	1.60
31749160--31749319	42	3.7	43	72	12	116	30	25	20	25	1.99
31755546--31755578	16	2.0	17	88	5	50	51	18	3	27	1.60
31784216--31784329	21	5.4	21	68	8	79	17	19	18	44	1.87
31784269--31784345	21	3.7	21	75	3	75	18	19	18	44	1.87
31784216--31784351	42	3.2	42	81	2	157	16	19	18	44	1.86
31796468--31796579	27	4.2	26	81	10	104	40	16	19	24	1.91
31796966--31797007	21	2.0	21	81	9	50	7	0	47	45	1.30
31801139--31801177	14	2.8	14	84	0	60	41	23	0	35	1.55
31809704--31809735	16	2.0	16	93	0	55	31	0	9	59	1.29
31815176--31815303	27	4.7	27	77	3	105	36	16	26	20	1.93
31818717--31818753	6	6.2	6	87	0	56	70	0	27	2	1.01
31839484--31839917	50	8.6	50	83	5	446	26	22	29	22	1.99
31840110--31840135	13	2.0	13	100	0	52	30	0	30	38	1.58
31841453--31841503	23	2.2	23	89	0	75	43	21	7	27	1.80
31845608--31845899	49	6.2	46	75	13	209	25	15	27	31	1.96
31845616--31845722	52	2.0	53	87	1	153	25	13	28	32	1.93
31851518--31851547	15	2.0	15	100	0	60	33	26	13	26	1.93
31851855--31852297	114	3.9	114	89	2	626	27	21	25	25	2.00
31852545--31852575	15	2.1	15	93	0	53	19	0	45	35	1.51
31852877--31852904	8	3.5	8	100	0	56	10	0	50	39	1.37
31852896--31852928	14	2.4	14	90	10	50	24	0	42	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31853588--31853685	49	2.0	49	90	4	153	63	11	5	20	1.46
31853769--31853878	56	2.0	56	90	0	175	54	10	5	29	1.57
31853637--31854021	199	1.9	200	84	6	523	47	12	12	27	1.77
31855120--31855315	106	1.8	106	91	0	320	51	12	10	25	1.72
31855495--31855534	21	2.0	20	85	5	53	72	2	0	25	0.97
31855615--31855830	107	2.0	107	88	1	317	46	10	12	30	1.75
31855120--31855852	258	2.8	253	86	5	1001	46	11	13	28	1.79
31855570--31856169	316	1.9	316	91	1	997	43	11	14	30	1.82
31855931--31856147	106	2.0	108	89	2	330	48	11	11	28	1.74
31856206--31856405	107	1.9	107	91	2	330	48	12	12	27	1.76

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