genome.fa.s8.2.7.7.80.10.50.1000.125.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  125  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)
37391871--37391904	15	2.3	15	90	5	52	26	0	5	67	1.13
37392861--37392885	7	3.6	7	100	0	50	28	0	12	60	1.32
37394040--37394093	23	2.3	23	96	0	99	46	16	0	37	1.48
37394035--37394109	23	3.0	23	71	17	69	46	16	1	36	1.55
37394054--37394231	29	6.0	29	83	9	216	44	24	1	29	1.61
37394054--37394231	63	2.9	61	89	5	256	44	24	1	29	1.61
37394040--37394231	86	2.2	83	84	10	237	45	22	1	30	1.60
37397471--37397702	126	1.8	125	89	4	369	31	21	16	29	1.96
37397864--37397923	29	2.2	27	85	8	77	46	13	11	28	1.78
37400259--37400291	5	6.6	5	92	0	57	36	0	24	39	1.56
37401323--37401428	27	3.9	26	75	7	95	43	0	1	54	1.11
37401350--37401393	18	2.4	18	85	11	54	38	0	2	59	1.10
37404972--37405022	26	2.1	24	82	10	59	47	1	1	49	1.24
37405002--37405039	13	2.7	14	80	12	51	57	0	0	42	0.98
37405002--37405042	15	2.9	15	79	20	52	58	0	0	41	0.98
37420086--37420172	43	2.0	43	100	0	174	32	18	20	28	1.96
37422959--37422999	16	2.7	15	81	7	55	43	24	2	29	1.67
37423076--37423369	41	6.8	44	74	8	203	28	21	23	26	1.99
37423079--37423632	173	3.2	174	75	14	575	29	21	23	25	1.99
37423071--37423388	87	3.7	87	75	8	328	28	22	22	26	1.99
37423403--37423473	22	3.2	22	93	0	115	30	16	26	25	1.97
37423117--37423649	174	3.1	172	73	13	552	28	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37423636--37423755	44	2.9	41	88	7	163	30	24	22	22	1.99
37423640--37423775	40	3.3	40	88	6	175	29	25	20	24	1.99
37425564--37425598	15	2.3	15	90	5	52	37	14	0	48	1.44
37425861--37426078	109	2.0	109	94	0	382	30	17	18	33	1.94
37427525--37427586	17	3.6	17	82	8	72	29	1	20	48	1.59
37428813--37428949	46	3.0	46	96	0	247	35	8	27	28	1.86
37435146--37435174	2	14.5	2	100	0	58	48	0	0	51	1.00
37435287--37435317	12	2.6	12	100	0	62	61	0	6	32	1.21
37435445--37435488	15	2.8	16	86	10	56	61	2	4	31	1.28
37435857--37436316	100	4.6	100	86	0	533	24	23	21	30	1.99
37435857--37436316	200	2.3	201	85	2	620	24	23	21	30	1.99
37435984--37436416	151	2.9	149	83	4	512	23	22	22	30	1.99
37435857--37436428	50	11.4	50	74	4	409	24	22	21	31	1.98
37437867--37437912	23	2.0	22	91	4	74	0	19	2	78	0.86
37437865--37437908	17	2.5	18	82	14	56	0	22	2	75	0.92
37437865--37437912	20	2.4	20	82	10	62	0	20	2	77	0.88
37440577--37440610	12	2.8	12	95	0	59	11	26	26	35	1.91
37440577--37440618	12	3.5	12	87	6	50	11	26	23	38	1.90
37452464--37452525	30	2.1	30	93	0	106	25	3	12	58	1.50
37452651--37452683	11	2.9	12	86	13	52	66	0	0	33	0.92
37456887--37456922	6	6.2	6	87	6	56	13	2	0	83	0.76
37456887--37456922	17	2.1	17	89	5	54	13	2	0	83	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37457331--37457388	21	2.7	22	82	17	70	36	8	0	55	1.31
37457715--37457904	105	1.8	105	86	2	274	26	15	23	34	1.95
37460956--37461163	42	5.0	42	88	5	280	31	23	20	25	1.98
37461584--37461622	12	3.2	12	92	0	51	2	35	17	43	1.63
37461608--37461676	21	3.3	21	79	0	75	4	40	18	36	1.71
37467186--37467633	9	49.9	9	72	11	251	35	4	13	46	1.63
37467248--37467633	54	6.8	56	80	13	414	36	3	12	47	1.58
37467248--37467633	27	13.6	27	77	15	361	36	3	12	47	1.58
37467269--37467565	63	5.0	61	83	10	329	36	3	11	48	1.55
37467523--37467628	55	1.9	56	92	1	178	36	5	12	45	1.65
37471212--37471289	39	2.0	38	82	7	95	34	21	16	26	1.95
37472982--37473039	29	1.9	31	89	6	93	46	6	13	32	1.70
37472982--37473046	29	2.2	31	86	5	89	50	6	12	30	1.64
37472989--37473053	29	2.2	29	81	5	78	50	6	12	30	1.64
37475333--37475358	12	2.2	12	100	0	52	7	15	30	46	1.74
37476988--37477270	147	1.9	147	97	0	530	25	12	24	38	1.90
37477038--37477282	73	3.3	73	67	13	205	26	13	24	35	1.92
37476988--37477340	147	2.4	147	88	1	440	26	13	22	37	1.91
37479868--37479925	26	2.2	26	84	0	71	43	17	1	37	1.59
37479868--37479927	13	4.6	13	75	8	59	43	16	1	38	1.58
37479900--37479932	17	2.0	17	88	5	50	48	18	0	33	1.48
37479920--37479997	40	2.0	40	94	0	138	39	8	6	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37479969--37480059	27	3.4	26	86	4	112	45	4	9	40	1.57
37479985--37480073	26	3.4	26	93	1	124	42	4	10	42	1.58
37480112--37480214	38	2.6	39	92	4	163	43	11	0	44	1.40
37480191--37480332	9	16.0	9	85	5	191	45	20	0	34	1.52
37485813--37485881	21	3.3	21	85	0	84	36	20	40	2	1.67
37485866--37485926	12	5.3	12	76	11	74	39	19	40	0	1.52
37485846--37485928	33	2.5	33	96	0	148	38	20	39	1	1.60
37486331--37486426	42	2.3	43	88	1	140	27	16	25	31	1.97
37486347--37486639	84	3.5	82	85	4	338	26	19	22	32	1.97
37486347--37486656	42	7.4	42	82	5	299	26	19	22	31	1.98
37488012--37488073	3	20.7	3	100	0	124	66	0	0	33	0.92
37490093--37490718	312	2.0	312	99	0	1243	29	13	24	32	1.93
37492310--37492401	19	4.8	19	90	0	148	39	8	14	38	1.77
37492310--37492408	38	2.7	38	93	3	166	39	8	15	37	1.77
37492602--37492654	23	2.2	24	80	6	63	24	3	13	58	1.51
37498153--37498213	25	2.7	23	80	10	63	70	1	22	4	1.15
37499289--37499768	88	5.4	88	88	1	683	28	26	23	21	1.99
37499603--37499747	44	3.3	43	63	8	103	24	27	24	23	2.00
37499288--37499781	264	1.9	265	89	0	765	28	27	23	21	1.99
37499793--37499900	44	2.5	44	89	6	157	27	15	28	27	1.96
37500249--37500693	217	2.0	218	90	1	705	29	19	23	26	1.98
37500266--37500725	44	10.6	44	72	13	231	28	20	23	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37501281--37501372	19	4.8	19	89	0	148	36	8	15	39	1.78
37501281--37501395	38	2.9	38	89	5	167	36	7	15	40	1.77
37501281--37501398	19	5.9	21	85	5	108	36	7	16	39	1.77
37501726--37501762	13	3.0	13	84	11	51	24	0	0	75	0.80
37501792--37501851	23	2.6	22	79	7	66	33	5	6	55	1.48
37503918--37503963	19	2.4	19	96	0	83	34	2	17	45	1.61
37504981--37505027	25	1.9	24	82	4	58	40	2	10	46	1.50
37505434--37505595	42	3.9	42	89	1	236	30	20	20	27	1.98
37513106--37513137	2	16.0	2	100	0	64	50	0	0	50	1.00
37513632--37513736	42	2.5	42	90	1	158	31	21	20	26	1.98
37513643--37513736	42	2.2	42	94	0	161	30	20	20	28	1.97
37513685--37513788	53	2.0	53	96	0	190	30	20	19	29	1.97
37529199--37529251	25	2.2	25	82	3	72	60	1	0	37	1.08
37529332--37529404	28	2.5	30	82	10	89	52	9	1	36	1.43
37530211--37530266	24	2.3	26	81	12	73	57	5	1	35	1.32
37541837--37541953	23	4.8	24	85	10	125	32	17	24	24	1.97
37549781--37549835	21	2.6	21	86	11	69	65	5	0	29	1.15
37550758--37550808	19	2.7	18	79	11	57	64	0	5	29	1.17
37555145--37555204	3	19.7	3	76	10	50	28	3	1	66	1.17
37555145--37555207	21	3.1	21	75	11	69	28	3	1	66	1.16
37555145--37555208	9	6.8	9	76	13	58	28	3	1	67	1.15
37556460--37556509	26	1.9	26	95	0	91	68	6	2	24	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37564229--37564275	15	3.1	15	78	0	58	21	14	21	42	1.88
37564222--37564298	30	2.6	30	80	0	82	24	16	16	41	1.89
37568963--37568998	15	2.5	14	86	8	54	44	8	0	47	1.33
37571819--37571871	18	3.1	18	81	15	67	35	0	0	64	0.94
37573243--37573275	13	2.6	13	90	4	50	72	0	6	21	1.05
37575350--37575468	45	2.7	45	84	3	143	24	22	24	28	1.99
37575922--37576040	44	2.7	44	82	3	141	28	21	20	30	1.98
37576958--37576989	14	2.3	14	94	0	55	12	3	0	84	0.74
37577427--37577478	7	7.9	7	76	20	58	1	1	9	86	0.72
37577425--37577478	13	4.1	14	77	17	55	1	1	9	87	0.71

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