genome.fa.s13.2.7.7.80.10.50.1000.148.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  148  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)
44418882--44418929	24	2.0	24	91	0	78	31	22	14	31	1.94
44423371--44423461	23	4.0	23	88	2	130	32	25	19	21	1.97
44433984--44434020	15	2.5	15	90	0	56	29	13	5	51	1.63
44435851--44435896	15	2.9	16	76	17	51	60	2	0	36	1.09
44435880--44435908	13	2.3	13	94	5	51	68	0	3	27	1.05
44436752--44438088	228	5.9	228	87	1	1453	21	24	23	29	1.99
44436728--44438088	684	2.0	684	83	1	1699	21	24	24	29	1.99
44439598--44439654	27	2.1	27	87	6	80	31	21	29	17	1.96
44439607--44439663	27	2.1	27	90	0	87	33	22	26	17	1.96
44439960--44440015	14	3.9	14	69	17	51	33	12	3	50	1.58
44440087--44440149	19	3.3	19	68	0	63	46	3	9	41	1.52
44440811--44440903	27	3.4	26	91	5	123	17	31	22	29	1.96
44440929--44440953	13	1.9	13	100	0	50	12	8	16	64	1.49
44440957--44441015	25	2.3	25	82	5	64	52	1	10	35	1.45
44445076--44445357	141	2.0	141	89	1	431	23	20	14	42	1.88
44452220--44452264	21	2.1	21	91	0	72	20	22	22	35	1.96
44456593--44456732	46	3.0	46	89	4	219	30	26	8	35	1.86
44460949--44461007	27	2.2	26	81	3	73	54	5	10	30	1.56
44461267--44461301	12	2.8	13	82	8	54	17	5	0	77	0.96
44465570--44465877	90	3.4	90	91	1	476	25	7	15	50	1.70
44469152--44469240	24	3.6	25	84	1	110	24	23	13	38	1.91
44469222--44469274	25	2.1	25	82	0	61	30	20	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44470104--44470217	57	2.0	57	100	0	228	36	10	17	35	1.84
44471496--44471549	11	4.9	11	80	6	65	22	18	0	59	1.38
44471498--44471549	5	9.6	5	84	12	59	21	19	0	59	1.38
44471544--44471589	20	2.2	21	80	7	58	26	13	0	60	1.32
44471633--44471684	17	2.9	17	74	25	54	30	13	0	55	1.38
44471655--44471740	39	2.2	39	89	6	129	33	16	0	50	1.46
44471696--44471772	28	2.8	28	82	7	93	31	14	1	53	1.49
44471761--44471800	20	2.1	19	85	4	53	22	5	0	72	1.04
44471775--44471831	19	2.8	19	69	20	53	22	8	1	66	1.29
44471844--44471916	21	3.6	21	82	10	82	23	13	1	61	1.40
44472096--44472177	12	6.9	11	73	19	67	24	20	1	53	1.53
44472167--44472230	21	3.0	21	77	4	67	25	10	1	62	1.37
44472190--44472311	22	6.0	19	67	19	59	24	10	3	61	1.44
44472267--44472350	23	3.6	23	79	14	75	28	11	1	58	1.41
44472293--44472394	11	9.8	11	65	19	58	29	13	0	55	1.45
44472336--44472394	29	2.0	29	90	0	91	28	13	1	55	1.48
44472784--44472856	22	3.2	22	67	18	60	38	0	9	52	1.34
44475904--44476011	54	2.0	54	80	10	123	38	19	21	20	1.93
44478566--44478596	12	2.6	12	100	0	62	25	19	22	32	1.97
44478813--44478837	11	2.3	11	100	0	50	16	24	0	60	1.36
44479323--44479388	23	2.9	23	81	0	87	33	18	27	21	1.96
44479321--44479395	23	3.3	23	75	7	71	33	20	26	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44481414--44481470	27	2.1	27	100	0	114	28	22	7	42	1.80
44481420--44481477	27	2.2	26	90	6	91	27	17	8	46	1.77
44488213--44488365	22	7.0	22	90	0	225	26	26	14	32	1.94
44500738--44500815	21	3.7	21	73	17	72	34	7	17	39	1.79
44500737--44500792	21	2.8	19	82	10	76	33	8	19	37	1.83
44504461--44504634	41	4.2	41	90	0	267	31	24	19	24	1.98
44505331--44505372	2	21.0	2	100	0	84	50	0	0	50	1.00
44509730--44509762	14	2.3	15	89	5	50	27	9	33	30	1.88
44511078--44511559	88	5.5	88	91	1	741	25	23	26	24	2.00
44511200--44511999	43	18.2	45	67	6	294	25	23	27	24	2.00
44511333--44511778	220	2.0	219	91	1	714	25	22	28	23	2.00
44511553--44512022	88	5.3	88	91	0	751	24	22	27	25	2.00
44511245--44511866	308	2.0	307	93	0	1046	24	23	28	23	2.00
44511157--44511954	396	2.0	396	91	1	1269	24	23	27	24	2.00
44511554--44512086	88	6.1	88	89	0	744	26	21	26	25	1.99
44512023--44512348	44	7.4	44	81	3	361	31	15	24	28	1.95
44511120--44512106	484	2.0	484	86	0	1384	25	22	26	25	2.00
44511597--44512147	264	2.1	264	84	0	717	27	20	25	26	1.99
44512070--44512346	131	2.1	133	89	4	427	31	15	24	28	1.96
44512026--44512362	175	1.9	175	86	6	466	31	15	24	29	1.95
44512693--44512746	19	2.8	19	94	0	90	33	9	20	37	1.84
44515690--44515812	65	1.9	66	80	8	144	38	15	22	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44515834--44515873	14	3.0	13	89	7	62	50	0	0	50	1.00
44516256--44516285	2	15.0	2	92	0	51	53	0	0	46	1.00
44516434--44516468	18	1.9	18	88	0	52	28	2	8	60	1.41
44517780--44517810	2	15.5	2	93	0	53	48	0	3	48	1.17
44532514--44532609	30	3.2	30	90	0	156	21	16	44	16	1.86
44539357--44539419	24	2.6	24	85	5	74	38	7	38	15	1.77
44544086--44544124	12	3.2	12	92	0	60	10	23	2	64	1.37
44544090--44544192	18	5.7	18	67	11	59	10	20	1	66	1.31
44544090--44544135	12	3.8	12	88	0	56	10	19	2	67	1.31
44545076--44545110	17	2.1	17	89	5	54	20	8	0	71	1.11
44547924--44548225	151	2.0	151	98	0	586	34	16	17	31	1.92
44548754--44548788	18	1.9	18	88	0	52	14	37	8	40	1.76
44570500--44570600	49	2.1	49	88	0	148	26	23	6	42	1.79
44572704--44572760	24	2.4	24	82	11	64	15	24	22	36	1.94
44572752--44572800	25	2.0	25	91	0	80	18	24	26	30	1.98
44574557--44574642	43	2.0	43	88	0	127	25	23	1	50	1.57
44579482--44579528	24	2.0	24	91	0	76	55	10	23	10	1.65
44579704--44579732	15	1.9	15	100	0	58	48	41	0	10	1.37
44579762--44579837	6	12.7	6	73	20	52	44	47	0	7	1.32
44579762--44579823	28	2.2	29	91	2	99	46	46	0	6	1.28
44580200--44580226	11	2.5	11	100	0	54	14	0	0	85	0.61
44580865--44580902	3	12.7	3	100	0	76	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44582987--44583103	29	4.1	29	78	10	116	58	2	2	35	1.25
44583017--44583097	10	8.5	10	69	11	55	64	1	3	30	1.19
44583024--44583103	20	4.2	20	68	26	64	58	1	3	36	1.24
44583021--44583144	57	2.1	58	84	8	155	61	2	4	31	1.30
44583140--44583206	29	2.3	29	94	2	118	25	5	2	65	1.29
44583307--44583367	20	3.1	19	79	11	61	22	4	1	70	1.15
44583315--44583377	19	3.3	19	82	6	65	20	3	1	74	1.04
44583366--44583424	19	3.2	17	79	15	64	37	1	1	59	1.18
44583448--44583621	88	2.0	90	82	4	219	33	6	19	39	1.78
44585350--44585382	4	8.2	4	100	0	66	24	0	24	51	1.48
44597520--44597578	21	2.8	21	77	7	66	20	18	15	45	1.85
44597518--44597653	42	3.2	42	79	0	137	18	22	16	43	1.88
44597562--44597624	21	3.0	21	72	9	65	19	26	15	38	1.92
44600504--44600550	6	7.8	6	100	0	94	68	0	14	17	1.22
44600504--44600618	6	19.3	6	80	8	58	70	1	6	20	1.20
44600540--44600623	40	2.1	39	82	10	100	72	2	2	22	1.08
44600555--44600608	11	5.0	10	76	14	54	72	1	0	25	0.95
44601573--44601758	93	2.0	94	80	3	214	24	29	19	25	1.99
44604583--44604608	7	3.7	7	100	0	52	88	0	0	11	0.52
44606238--44606394	56	2.8	56	90	0	242	29	8	15	45	1.76
44609423--44609576	56	2.8	55	84	3	202	29	9	14	46	1.76
44610164--44610197	16	2.2	16	89	5	52	55	11	0	32	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44618129--44618177	26	1.9	25	83	4	62	26	8	10	55	1.61
44618554--44618637	31	2.9	28	68	14	64	42	10	13	33	1.78
44618820--44618886	31	2.2	31	84	5	84	22	13	10	53	1.69
44618844--44618917	31	2.4	32	84	4	89	24	10	12	52	1.70
44623025--44623064	21	1.9	21	84	0	53	45	22	7	25	1.78
44627850--44627894	11	4.2	11	85	5	56	6	37	37	17	1.76
44635167--44635203	19	1.9	19	89	10	58	40	8	8	43	1.64
44635654--44635698	21	2.1	22	83	4	56	24	2	2	71	1.09
44638639--44638707	31	2.2	31	79	5	77	55	4	5	34	1.44
44645640--44645697	30	1.9	30	100	0	116	18	25	17	37	1.93

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