genome.fa.s2.2.7.7.80.10.50.1000.138.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  138  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)
42144207--42144365	19	8.0	21	77	16	144	37	9	15	37	1.80
42145080--42145129	25	2.0	26	88	4	75	32	8	4	56	1.47
42149679--42149735	24	2.3	25	79	11	64	29	12	1	56	1.46
42151855--42152303	44	10.2	44	63	15	160	30	20	24	24	1.98
42151743--42152415	132	5.1	132	91	0	1078	30	20	25	24	1.99
42152386--42152712	44	7.5	43	75	13	253	28	20	23	27	1.99
42152387--42152721	89	3.8	89	74	15	247	28	20	23	26	1.99
42152897--42153009	19	5.8	19	89	4	145	39	10	14	35	1.80
42152898--42152998	40	2.6	40	90	3	161	39	10	13	35	1.80
42152963--42153015	19	2.9	17	91	5	61	43	5	9	41	1.61
42153526--42153559	12	2.7	13	86	9	52	14	0	2	82	0.79
42153773--42153822	25	2.0	26	88	4	75	32	8	4	56	1.47
42154492--42154688	98	2.0	98	92	0	331	27	8	25	38	1.85
42156464--42156518	21	2.6	21	77	8	58	34	7	38	20	1.80
42156830--42156859	14	2.1	15	93	6	53	56	0	43	0	0.99
42156971--42157003	17	1.9	17	93	0	57	21	12	9	57	1.62
42157047--42157091	19	2.4	19	96	0	81	31	17	28	22	1.97
42157754--42157793	20	2.0	21	90	5	64	25	15	10	50	1.74
42157756--42157800	20	2.2	20	84	7	56	24	17	11	46	1.81
42161329--42161573	50	4.9	50	84	2	267	25	22	30	21	1.99
42161276--42161622	100	3.4	99	78	3	307	27	20	28	23	1.99
42163111--42163507	50	7.8	50	84	2	409	27	22	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42170015--42170411	50	7.8	50	83	2	402	27	21	28	21	1.99
42170933--42170968	18	1.9	19	94	5	65	63	0	5	30	1.17
42177465--42177527	33	1.9	33	90	0	99	4	36	19	39	1.72
42186665--42186739	11	6.7	11	70	27	52	45	2	1	50	1.24
42187831--42187859	11	2.6	11	100	0	58	37	31	0	31	1.58
42197977--42198010	17	1.9	18	88	5	52	35	23	0	41	1.55
42198528--42198944	213	2.0	204	94	5	732	39	10	4	45	1.59
42203031--42203081	25	2.0	25	84	0	66	27	13	23	35	1.93
42206964--42207010	14	3.4	14	70	5	51	68	4	23	4	1.26
42206965--42207019	27	2.0	27	100	0	110	63	3	29	3	1.28
42208335--42208363	15	1.9	15	100	0	58	20	41	3	34	1.69
42224148--42224172	12	2.1	12	100	0	50	52	0	8	40	1.31
42232668--42232789	27	4.5	28	72	10	92	38	12	26	22	1.90
42232668--42232789	54	2.3	54	85	2	156	38	12	26	22	1.90
42238369--42238437	27	2.6	27	71	0	66	42	10	21	26	1.84
42247037--42247079	22	1.9	22	85	4	59	37	2	37	23	1.68
42248975--42249018	18	2.4	18	81	7	54	47	15	4	31	1.66
42249347--42249458	28	3.8	28	77	8	89	50	10	5	33	1.60
42249447--42249516	26	2.8	24	75	12	68	45	15	4	34	1.66
42255179--42255312	54	2.5	56	80	6	159	36	17	23	22	1.95
42255443--42255602	31	5.2	31	69	15	118	25	11	21	41	1.87
42255455--42255558	32	3.4	31	72	8	104	23	11	19	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42255447--42255610	61	2.7	61	86	3	206	24	12	21	41	1.88
42255457--42255687	61	3.8	61	79	5	198	25	14	21	38	1.91
42255770--42255844	30	2.5	30	77	0	87	16	14	30	38	1.88
42259621--42259697	20	3.8	20	80	13	95	23	25	0	50	1.49
42272281--42272342	30	2.1	30	87	6	90	48	11	8	32	1.68
42280894--42280996	43	2.4	43	81	1	118	22	31	29	17	1.97
42285919--42286279	177	2.0	179	92	2	600	28	7	27	36	1.84
42286442--42286482	21	2.0	20	85	4	55	29	21	26	21	1.99
42286844--42286965	54	2.3	54	80	9	133	34	13	24	27	1.93
42294627--42294839	101	2.1	101	86	0	291	29	17	25	27	1.97
42294655--42294837	33	5.5	33	69	14	101	30	17	25	27	1.97
42300437--42300501	19	3.2	19	72	23	53	35	3	1	60	1.22
42300487--42300567	21	3.8	21	69	16	58	35	2	1	60	1.18
42300436--42300559	10	11.8	11	69	16	68	33	3	1	61	1.22
42300552--42300601	17	2.8	18	84	9	66	26	0	6	68	1.13
42301074--42301130	11	5.5	10	76	14	53	24	3	1	70	1.13
42301067--42301203	19	7.2	19	69	11	68	31	1	4	62	1.23
42301067--42301203	9	14.4	9	71	15	73	31	1	4	62	1.23
42303518--42303589	19	3.7	19	85	7	99	36	9	16	37	1.82
42303519--42303615	19	4.7	21	77	15	96	36	8	17	38	1.80
42303519--42303615	40	2.4	41	82	6	117	36	8	17	38	1.80
42310487--42311537	88	12.0	88	90	0	1516	25	23	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42310487--42311502	263	3.9	263	89	1	1532	25	23	26	24	2.00
42310487--42311473	351	2.8	352	90	1	1552	25	23	26	24	2.00
42311474--42311904	44	9.8	44	87	2	578	30	15	25	29	1.96
42310487--42311774	176	7.3	176	88	1	1283	26	21	26	25	2.00
42311477--42311861	133	2.9	132	90	1	558	30	15	25	29	1.95
42311474--42311904	177	2.4	177	94	0	758	30	15	25	29	1.96
42312278--42312340	21	3.1	21	93	4	103	36	9	15	38	1.81
42312278--42312374	40	2.4	41	84	6	126	35	8	17	39	1.80
42312277--42312348	19	3.7	19	89	7	108	34	9	16	38	1.82
42312340--42312384	23	2.0	23	82	4	56	31	4	17	46	1.68
42317371--42317408	20	1.9	20	88	0	58	39	5	7	47	1.55
42317578--42317650	33	2.2	33	80	9	87	41	26	19	13	1.88
42317976--42318040	17	3.9	16	70	10	51	55	1	3	40	1.25
42319262--42319306	22	2.0	22	87	8	65	37	0	2	60	1.09
42319286--42319344	29	2.0	30	90	3	93	45	0	0	54	0.99
42319699--42319735	12	2.8	14	88	8	51	45	0	18	35	1.50
42327287--42327325	17	2.2	18	86	4	53	66	5	0	28	1.12
42327304--42327361	9	6.3	9	74	20	50	68	8	0	22	1.16
42327312--42327361	18	2.7	18	82	11	66	70	8	0	22	1.13
42327697--42327739	21	2.0	21	82	8	52	41	0	2	55	1.12
42331903--42331948	4	11.5	4	100	0	92	23	0	0	76	0.79
42335038--42335097	26	2.3	27	85	5	79	38	5	18	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42335054--42335107	26	2.1	25	83	10	65	42	5	16	35	1.72
42346575--42346626	22	2.3	22	78	12	61	59	0	0	40	0.97
42348895--42348934	21	1.9	21	84	0	53	52	0	2	45	1.14
42349195--42349242	3	16.0	3	95	0	87	31	0	2	66	1.03
42349899--42349943	22	2.0	23	86	4	65	46	8	4	40	1.55
42354161--42354219	18	3.3	18	85	0	82	23	11	27	37	1.90
42354161--42354219	9	6.6	9	86	0	73	23	11	27	37	1.90
42358648--42358939	111	2.6	112	88	5	432	33	21	16	28	1.95
42360640--42360676	3	12.3	3	100	0	74	0	32	0	67	0.91
42374365--42374410	2	23.0	2	100	0	92	50	0	0	50	1.00
42374511--42374555	2	22.5	2	100	0	90	48	0	0	51	1.00
42387322--42387360	19	1.9	20	85	15	53	79	0	15	5	0.90
42407729--42407792	29	2.2	29	91	5	103	42	12	20	25	1.87
42407728--42407998	115	2.3	116	85	4	375	38	12	25	23	1.90
42407790--42408014	59	3.8	59	76	8	208	37	13	26	22	1.92
42407786--42408001	88	2.5	87	75	6	213	37	12	27	22	1.90
42407786--42408014	29	7.9	29	78	7	144	37	13	26	22	1.92
42411240--42411279	21	2.0	20	85	14	55	50	12	0	37	1.41
42417659--42417693	5	7.2	5	87	6	54	80	0	0	20	0.72
42420657--42420717	31	1.9	33	86	6	90	27	16	4	50	1.65
42421054--42421122	36	1.9	35	82	8	86	47	2	0	49	1.16
42428389--42428471	42	2.0	42	100	0	166	31	7	24	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42429435--42430249	138	5.9	138	87	2	1197	44	6	8	40	1.62
42436440--42437122	138	5.0	137	88	4	981	45	5	7	40	1.56
42454799--42454872	38	1.9	38	97	0	139	39	17	8	35	1.79
42455515--42455809	30	9.7	30	91	1	448	41	19	9	29	1.83
42461274--42461307	16	2.1	16	88	0	50	32	14	2	50	1.58
42468108--42468244	67	2.0	67	100	0	274	29	10	30	29	1.90
42473467--42473503	7	5.4	7	87	6	58	29	0	27	43	1.55
42473619--42473808	41	4.6	41	83	1	184	23	16	16	43	1.87
42478258--42478340	41	2.0	41	97	0	157	39	10	8	40	1.70
42486236--42486281	9	5.1	9	83	0	65	26	8	17	47	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   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206