genome.fa.s2.2.7.7.80.10.50.1000.82.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   205   206   

This is table  82  of  206  ( 24623 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)
23497887--23497916	12	2.5	12	94	0	51	23	40	30	6	1.80
23499053--23499153	34	3.0	34	88	0	148	18	7	10	62	1.52
23499539--23499577	13	2.6	16	76	23	57	56	0	33	10	1.33
23499547--23499578	13	2.5	13	100	0	64	56	0	28	15	1.40
23502620--23502659	20	2.0	21	90	5	64	37	0	2	60	1.11
23505503--23505527	13	1.9	13	100	0	50	44	8	16	32	1.76
23513197--23513241	24	1.9	23	81	4	54	33	15	15	35	1.89
23513335--23513734	200	2.0	199	94	0	692	32	18	15	33	1.93
23514469--23514561	27	3.4	27	79	2	80	20	22	13	43	1.87
23514668--23514740	27	2.7	27	85	4	85	32	26	9	31	1.88
23517067--23517664	134	4.5	134	83	3	661	33	18	11	37	1.86
23518904--23518974	24	2.9	25	75	8	67	15	29	19	35	1.93
23519124--23519171	24	2.0	24	84	8	62	18	22	22	35	1.96
23519179--23519276	25	4.0	25	71	6	74	25	26	15	32	1.95
23540205--23540244	17	2.4	17	100	0	80	37	35	7	20	1.81
23542209--23542310	31	3.5	30	70	17	88	43	9	28	18	1.82
23542573--23542627	16	3.5	16	76	16	53	67	0	1	30	1.01
23543621--23543842	110	2.0	110	95	0	399	24	30	16	28	1.97
23544147--23544307	40	4.0	40	80	0	160	31	19	22	27	1.98
23544146--23544304	80	2.0	80	83	0	201	30	18	23	27	1.97
23544239--23544515	114	2.4	115	84	0	340	33	18	21	26	1.96
23544353--23544435	40	2.0	40	81	2	94	36	18	20	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23544289--23544515	115	2.0	114	87	0	328	34	17	20	26	1.95
23544354--23544795	157	2.8	156	87	2	604	32	17	22	27	1.96
23544826--23544879	14	3.8	14	77	2	54	24	1	24	50	1.60
23544905--23544948	14	3.1	14	83	6	54	18	0	27	54	1.44
23544916--23544957	21	2.0	21	85	0	57	16	0	30	52	1.44
23544917--23544957	14	2.9	14	81	0	55	14	0	31	53	1.41
23545122--23545353	7	33.1	7	72	3	117	22	0	28	47	1.57
23545127--23545180	20	2.6	21	85	2	74	22	0	31	46	1.52
23546005--23546047	22	1.9	23	90	4	70	41	4	23	30	1.74
23546970--23547010	20	2.1	20	86	4	57	14	14	4	65	1.42
23549100--23549179	41	2.0	41	82	0	97	32	16	21	30	1.95
23549097--23549325	86	2.7	85	80	5	248	29	19	20	30	1.97
23549099--23549428	43	7.7	43	75	3	200	28	16	20	33	1.95
23549167--23549376	86	2.4	86	82	3	235	28	16	21	34	1.95
23552325--23552379	26	2.1	26	100	0	110	12	27	7	52	1.65
23553436--23553626	95	2.0	95	100	0	382	25	15	8	50	1.72
23555589--23555618	13	2.3	13	94	0	51	50	13	3	33	1.58
23555368--23555838	243	1.9	243	99	0	924	40	13	12	32	1.82
23556062--23556146	9	8.6	10	73	15	61	58	1	3	36	1.23
23556139--23556179	19	2.2	19	86	4	57	60	0	7	31	1.24
23556758--23556802	23	1.9	24	81	4	56	48	4	0	46	1.22
23556723--23556885	61	2.8	57	76	14	138	49	3	1	45	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23574283--23574315	16	2.1	16	100	0	66	36	6	36	21	1.78
23574297--23574391	44	2.1	45	86	5	131	32	5	29	32	1.80
23574523--23574555	16	2.1	16	94	0	57	39	6	33	21	1.78
23574794--23574830	16	2.2	17	86	13	51	54	0	2	43	1.14
23574599--23574840	127	1.9	125	94	4	366	47	4	3	44	1.41
23576211--23576240	12	2.5	12	94	0	51	46	10	30	13	1.75
23579129--23579286	34	4.5	34	67	17	106	48	23	6	21	1.74
23579129--23579191	23	2.7	24	79	16	87	52	22	7	17	1.70
23579158--23579203	22	2.1	22	84	8	58	58	19	4	17	1.55
23579101--23579330	107	2.1	107	97	0	433	44	24	6	25	1.76
23579236--23579324	23	4.0	23	75	15	80	50	23	6	19	1.71
23581438--23581483	20	2.3	20	85	7	58	71	6	0	21	1.08
23581545--23581624	26	3.0	25	76	10	61	50	1	2	46	1.23
23581928--23582000	37	2.0	37	83	0	92	45	6	9	38	1.64
23582333--23582379	22	2.1	22	100	0	94	53	0	0	46	1.00
23582463--23582497	17	2.1	17	100	0	70	34	22	14	28	1.93
23587145--23587193	24	2.0	24	100	0	98	36	12	16	34	1.86
23590932--23591024	45	2.1	45	95	0	168	49	17	15	18	1.80
23591416--23591497	25	3.3	26	70	19	75	26	21	28	23	1.99
23598223--23598344	25	4.9	25	75	3	95	29	22	27	21	1.99
23598233--23598391	25	6.5	24	67	11	90	29	21	27	21	1.98
23599708--23599734	13	2.1	13	100	0	54	0	22	14	62	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23601982--23602018	18	2.0	19	85	15	51	32	16	2	48	1.60
23602326--23602362	2	19.0	2	94	5	67	51	0	0	48	1.00
23603241--23603292	20	2.5	20	77	22	54	50	1	1	46	1.23
23606625--23606689	21	3.2	21	78	6	71	3	33	16	46	1.63
23611518--23611559	22	1.9	22	85	0	57	23	23	2	50	1.61
23611569--23611597	15	1.9	15	100	0	58	31	0	0	68	0.89
23615579--23615779	43	4.5	43	72	12	172	32	1	19	46	1.61
23615588--23615705	38	2.9	39	82	6	121	34	1	18	44	1.60
23615688--23615845	54	2.9	54	70	12	151	31	1	20	46	1.58
23615765--23615959	9	20.9	9	73	13	99	32	0	18	48	1.49
23615792--23615937	47	3.1	47	96	1	258	32	0	19	47	1.50
23619327--23619477	7	21.4	7	72	6	90	47	25	1	25	1.62
23619299--23619477	21	8.5	21	71	6	110	45	27	2	24	1.65
23619754--23620007	116	2.2	116	84	4	336	26	21	19	31	1.97
23619905--23620154	74	3.4	74	86	1	322	28	20	18	32	1.96
23620132--23620216	40	2.1	40	89	4	127	21	22	22	34	1.97
23621826--23621938	54	2.1	54	93	0	190	16	13	33	36	1.88
23626950--23627003	28	1.9	28	100	0	108	46	0	3	50	1.19
23634487--23634527	13	2.9	14	77	22	50	41	0	0	58	0.98
23634487--23634523	15	2.3	17	86	13	60	37	0	0	62	0.96
23635170--23635232	10	6.4	10	71	20	53	49	1	1	47	1.20
23635162--23635234	23	3.0	24	77	16	87	49	1	1	47	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23636121--23636173	27	2.0	27	81	7	63	49	9	15	26	1.74
23636827--23636967	63	2.3	63	87	1	194	26	30	21	20	1.98
23645710--23645738	15	1.9	15	100	0	58	34	6	27	31	1.83
23648739--23648863	45	2.8	44	80	7	144	42	15	21	20	1.89
23656607--23656729	50	2.5	49	78	6	133	30	21	26	21	1.98
23656607--23656736	49	2.6	49	79	6	138	30	20	26	22	1.98
23656939--23656987	20	2.5	20	81	15	66	57	6	24	12	1.58
23660384--23660421	10	3.5	11	86	13	53	63	2	0	34	1.09
23661160--23661238	33	2.6	31	82	9	92	29	26	24	20	1.99
23661579--23661712	26	5.2	26	88	1	198	23	19	19	37	1.94
23668094--23668139	23	2.1	23	84	8	60	43	15	4	36	1.66
23668094--23668197	19	5.1	21	82	6	67	40	14	6	38	1.72
23668094--23668152	22	2.7	22	82	7	66	40	16	5	37	1.71
23668131--23668241	19	5.8	19	86	0	168	36	13	8	41	1.74
23668569--23669593	132	7.8	132	92	1	1646	29	24	18	28	1.98
23673566--23673611	24	1.9	24	86	0	65	15	26	15	43	1.85
23675832--23675904	31	2.4	31	97	0	137	39	16	13	30	1.87
23677112--23677192	33	2.6	31	78	17	89	30	22	22	24	1.99
23677354--23677419	27	2.5	27	85	7	82	36	22	21	19	1.95
23677598--23677772	52	3.4	52	81	3	219	29	16	17	37	1.92
23677595--23677772	78	2.3	78	82	5	225	29	16	16	37	1.92
23677598--23677772	26	6.8	25	80	9	190	29	16	17	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23683768--23683805	7	5.4	7	100	0	76	28	0	0	71	0.87
23688265--23688302	19	2.1	19	85	9	53	65	2	0	31	1.06
23688265--23688303	18	2.1	19	85	4	53	66	2	0	30	1.05
23694123--23694156	2	16.5	2	93	6	59	2	0	47	50	1.16
23694696--23694922	42	5.5	42	82	4	239	29	18	23	29	1.97
23700456--23700517	26	2.4	26	94	0	115	35	16	12	35	1.87
23705708--23705761	26	2.0	28	85	7	76	42	0	3	53	1.18
23706059--23706155	10	10.0	9	74	11	59	34	4	3	58	1.32
23706130--23706163	10	3.5	10	92	4	52	32	0	0	67	0.91
23707996--23708038	14	3.0	14	83	6	59	58	6	0	34	1.25

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   205   206