genome.fa.s13.2.7.7.80.10.50.1000.19.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  19  of  199  ( 23770 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)
5665670--5665703	14	2.4	14	95	0	59	11	8	20	58	1.59
5665758--5665895	43	3.2	43	83	3	170	26	18	22	32	1.97
5672386--5672432	24	2.0	24	87	8	69	6	8	10	74	1.22
5674966--5675005	20	2.0	20	85	0	53	50	10	10	30	1.69
5674954--5675020	34	1.9	35	84	3	91	46	10	8	34	1.70
5678734--5678765	16	2.0	16	93	0	55	40	0	18	40	1.51
5683758--5683803	20	2.2	21	92	7	85	47	19	0	32	1.50
5683758--5683804	11	4.5	11	87	12	73	46	19	0	34	1.50
5683785--5683840	27	2.1	27	100	0	112	53	10	7	28	1.62
5683762--5683832	5	13.2	6	80	16	68	49	15	2	32	1.59
5683829--5683856	14	2.0	14	100	0	56	71	0	14	14	1.15
5690507--5690553	17	2.7	17	77	9	51	70	4	0	25	1.05
5690621--5690664	18	2.4	19	85	7	56	56	0	2	40	1.11
5693526--5693554	10	2.7	11	89	10	51	44	0	17	37	1.49
5694099--5694256	73	2.1	74	86	4	212	18	31	18	31	1.95
5694114--5694256	25	5.8	25	83	3	157	18	32	18	30	1.96
5696299--5696386	28	3.2	28	76	13	85	60	3	2	34	1.26
5699783--5699847	16	4.1	16	93	0	103	38	3	35	23	1.70
5702750--5702802	7	7.4	7	78	4	61	60	3	0	35	1.15
5702723--5702802	39	2.1	36	93	6	133	60	6	0	33	1.22
5702730--5702804	36	2.0	38	87	7	109	60	6	1	32	1.31
5702855--5702881	11	2.5	11	100	0	54	51	18	7	22	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5705513--5705591	38	2.1	39	90	7	126	60	11	25	2	1.43
5705573--5705610	20	1.9	20	94	0	67	39	18	34	7	1.80
5712126--5712168	12	3.4	12	87	6	50	23	4	0	72	1.04
5713000--5713120	9	13.4	9	88	3	181	25	9	21	42	1.83
5719887--5719929	21	2.0	21	100	0	86	41	11	13	32	1.81
5735042--5735084	3	14.3	3	95	0	77	37	0	0	62	0.95
5735215--5735273	2	30.5	2	78	13	61	49	1	1	47	1.21
5742667--5742739	3	24.3	3	100	0	146	34	0	0	65	0.93
5742873--5742911	2	19.5	2	100	0	78	48	0	0	51	1.00
5745555--5745652	37	2.6	38	72	8	92	37	16	18	27	1.92
5766946--5767220	147	1.9	147	89	0	424	27	9	42	20	1.83
5773361--5773406	21	2.2	21	92	0	74	43	0	19	36	1.51
5786526--5786584	29	2.0	29	90	0	91	37	22	11	28	1.89
5788420--5788480	32	2.0	30	84	12	79	47	24	4	22	1.71
5789807--5789920	41	2.8	41	97	0	210	15	21	35	27	1.94
5790497--5790542	21	2.2	21	92	7	76	19	0	43	36	1.51
5791853--5791890	16	2.3	17	90	4	60	5	13	18	63	1.48
5794518--5794574	27	2.2	26	84	9	71	24	8	3	63	1.39
5794762--5794984	43	5.2	43	82	1	241	23	16	29	30	1.96
5794929--5795045	61	1.9	62	87	5	175	20	16	32	30	1.94
5795638--5795879	42	5.8	41	84	2	277	31	21	22	24	1.98
5795640--5795879	84	2.9	83	86	4	347	31	21	22	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5796360--5796409	21	2.4	21	79	0	55	4	46	20	30	1.69
5801911--5802434	9	59.4	9	78	10	487	33	1	18	46	1.56
5802273--5802313	21	2.0	21	85	9	57	34	0	24	41	1.55
5804057--5804096	15	2.7	15	84	0	53	37	2	45	15	1.59
5804266--5804537	116	2.3	116	83	3	316	41	20	12	25	1.87
5804441--5804649	114	1.8	114	83	4	278	41	19	14	24	1.89
5805121--5805166	22	2.1	22	84	8	58	54	19	0	26	1.44
5805107--5805173	29	2.3	29	82	5	73	50	22	1	25	1.57
5805149--5805238	7	11.9	8	76	12	59	42	36	2	18	1.63
5805255--5805314	22	2.7	22	79	7	59	35	41	5	18	1.72
5813019--5813078	30	2.0	30	81	12	70	31	3	13	51	1.57
5813301--5813343	20	2.0	21	91	8	70	44	13	18	23	1.86
5814179--5814221	21	2.0	21	86	8	61	53	18	9	18	1.70
5818207--5818604	194	2.0	196	90	3	631	46	17	9	27	1.78
5819526--5819560	15	2.3	15	90	9	54	25	2	0	71	1.00
5820390--5820420	14	2.2	14	94	0	53	48	12	0	38	1.42
5827987--5828024	12	3.2	12	85	3	51	78	5	0	15	0.91
5827987--5828024	18	2.2	17	90	4	58	78	5	0	15	0.91
5829675--5829718	5	8.2	5	92	7	61	75	2	0	22	0.92
5830597--5830809	113	1.9	114	83	4	279	27	24	23	24	2.00
5837708--5837766	21	2.8	21	94	0	100	18	25	22	33	1.96
5838355--5838387	17	2.0	17	94	5	59	48	24	6	21	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5843439--5843490	24	2.2	24	85	0	68	53	9	3	32	1.51
5846391--5846454	7	8.9	7	77	17	51	35	0	46	17	1.48
5846391--5846459	10	6.9	10	76	11	61	37	0	44	17	1.49
5846402--5846454	17	3.2	17	70	26	51	35	0	47	16	1.48
5849457--5849598	23	6.0	22	70	16	72	55	5	6	32	1.48
5856254--5856317	12	5.8	11	77	14	60	17	4	0	78	0.92
5856254--5856297	21	2.1	21	83	8	54	15	4	0	79	0.89
5856255--5856312	17	3.5	16	83	6	64	17	5	0	77	0.94
5856261--5856324	27	2.4	28	82	10	71	18	6	0	75	1.01
5857336--5857365	15	1.9	15	93	6	51	86	3	10	0	0.67
5859951--5860166	44	4.9	43	90	2	315	27	26	17	28	1.98
5859951--5860166	88	2.4	87	93	1	351	27	26	17	28	1.98
5867297--5867438	23	6.0	22	68	16	63	54	5	6	33	1.49
5867512--5867560	20	2.5	20	83	3	55	63	6	2	28	1.30
5874596--5874634	15	2.7	15	88	7	55	69	7	23	0	1.14
5875524--5875879	175	2.0	173	89	1	532	29	19	18	31	1.96
5875524--5875922	173	2.3	172	85	4	473	29	20	18	31	1.96
5875689--5876145	219	2.1	219	89	0	709	28	20	18	32	1.96
5877382--5877416	7	5.0	7	86	13	54	14	14	0	71	1.15
5890715--5890752	20	1.9	20	89	10	60	60	5	0	34	1.19
5901305--5901356	20	2.6	21	79	17	65	36	3	1	57	1.28
5901309--5901356	19	2.3	21	82	13	64	37	4	2	56	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5905010--5905047	18	2.1	18	100	0	76	28	15	28	26	1.96
5910631--5910684	19	2.6	21	80	14	67	35	3	1	59	1.26
5915647--5915763	3	36.7	3	80	16	112	31	5	1	61	1.28
5915678--5915774	18	5.1	19	81	8	74	29	8	1	60	1.32
5915800--5915839	18	2.2	18	95	0	71	45	12	0	42	1.42
5922314--5922361	23	2.3	20	77	19	53	56	6	0	37	1.25
5922580--5923284	143	4.9	142	88	1	982	30	20	22	27	1.98
5922934--5923190	44	5.6	44	68	11	138	29	22	22	26	1.99
5924774--5925185	26	16.3	25	72	11	202	29	8	3	58	1.43
5925014--5925184	50	3.3	48	78	11	155	26	8	3	61	1.40
5927006--5927059	9	5.8	9	80	20	58	25	18	11	44	1.83
5927006--5927060	19	2.9	19	78	21	62	27	18	10	43	1.83
5929755--5929795	6	7.0	6	89	10	59	85	0	12	2	0.70
5931368--5931601	36	5.6	45	75	19	247	37	12	20	29	1.89
5931368--5931603	82	2.9	82	92	1	379	37	12	20	29	1.89
5939041--5939274	36	5.6	45	75	19	238	36	13	21	28	1.92
5939041--5939274	82	2.9	81	92	1	373	36	13	21	28	1.92
5941706--5941926	44	4.8	44	68	13	138	28	19	23	28	1.99
5941122--5942318	143	8.4	143	86	0	1561	30	19	21	28	1.98
5942964--5943002	17	2.3	17	86	0	51	12	12	0	74	1.08
5943789--5943894	27	3.9	27	80	10	119	29	8	0	61	1.32
5943789--5943914	26	4.8	26	81	13	127	29	7	1	61	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5943773--5943912	25	5.5	25	75	16	85	29	7	2	60	1.36
5943789--5944131	52	6.7	50	69	15	163	29	7	4	59	1.43
5943773--5944120	26	13.8	25	70	16	125	29	7	4	58	1.44
5945539--5945571	15	2.2	15	94	0	57	42	0	42	15	1.46
5946342--5946383	20	2.1	20	95	0	75	42	9	21	26	1.83
5946942--5946982	20	1.9	23	85	14	61	24	9	17	48	1.76
5950230--5950483	127	2.0	127	98	0	490	36	12	24	27	1.91
5952935--5953058	43	2.9	44	77	13	132	29	29	20	20	1.98
5963970--5964033	28	2.3	26	80	15	67	37	3	6	53	1.42
5980079--5980353	147	1.9	147	88	0	415	27	11	42	18	1.85

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