genome.fa.s13.2.7.7.80.10.50.1000.172.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  172  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)
50146663--50146729	32	2.2	31	87	10	95	47	4	5	41	1.48
50146954--50147128	11	17.1	10	71	21	55	35	2	0	61	1.13
50146946--50147134	40	4.7	40	87	8	228	37	2	0	60	1.13
50147331--50147500	43	3.8	43	76	15	182	40	3	8	48	1.50
50147417--50147470	16	3.0	19	65	25	53	38	3	11	46	1.57
50147434--50147500	16	4.5	16	69	17	54	38	1	8	50	1.43
50147417--50147489	35	2.1	34	90	7	112	38	2	9	49	1.50
50147316--50147505	93	2.1	92	90	5	296	39	4	8	47	1.55
50165290--50165564	150	1.8	150	93	0	478	30	21	24	23	1.99
50165295--50165683	50	7.6	50	79	6	368	29	22	22	25	1.99
50165493--50165712	107	2.1	107	88	0	323	29	24	20	26	1.99
50167265--50167302	3	12.3	3	88	5	58	31	2	2	63	1.22
50167340--50167373	17	2.0	17	88	0	50	44	11	0	44	1.40
50167515--50167555	2	20.5	2	100	0	82	48	0	0	51	1.00
50167603--50167637	8	4.4	8	96	0	61	22	2	0	74	0.95
50169129--50169165	19	1.9	20	88	5	58	18	2	2	75	1.04
50170992--50171028	13	2.7	14	88	12	51	16	5	0	78	0.93
50171745--50171783	18	2.2	18	90	0	60	20	30	28	20	1.98
50173250--50173289	18	2.2	19	90	4	64	37	2	2	57	1.26
50173757--50173810	25	2.2	24	90	3	81	42	0	0	57	0.98
50174510--50174561	19	2.8	18	71	28	54	65	3	3	26	1.27
50178302--50178338	18	2.1	18	94	0	65	5	18	13	62	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50182953--50182994	3	14.0	3	100	0	84	66	0	0	33	0.92
50186939--50186983	23	1.9	24	90	4	74	66	8	2	22	1.30
50190724--50190767	2	22.0	2	100	0	88	50	0	0	50	1.00
50191367--50191429	30	2.1	30	96	0	117	26	3	12	57	1.51
50196098--50196407	44	6.9	44	67	10	173	30	18	21	29	1.97
50196114--50196312	88	2.2	89	81	2	222	30	18	23	27	1.98
50196583--50196629	19	2.3	20	82	7	60	63	19	6	10	1.47
50198122--50198175	27	2.1	27	86	6	76	22	9	1	66	1.30
50199823--50199861	16	2.4	17	86	4	53	43	10	2	43	1.52
50199823--50199880	18	3.2	17	82	4	62	43	8	3	44	1.51
50199891--50200010	38	3.2	38	80	10	140	42	12	15	30	1.83
50199908--50200010	36	2.8	37	83	5	138	43	11	13	31	1.80
50199908--50200010	17	5.7	17	72	17	82	43	11	13	31	1.80
50200078--50200135	17	3.4	17	75	18	57	43	10	15	31	1.80
50200078--50200147	17	4.1	17	75	17	56	40	10	15	34	1.81
50200381--50200429	17	2.8	17	76	14	55	44	10	18	26	1.81
50200875--50200913	20	2.0	20	90	10	62	0	17	0	82	0.68
50201019--50201062	23	2.0	23	86	4	63	2	27	43	27	1.67
50201305--50201396	7	13.3	7	78	11	66	0	22	0	77	0.77
50201306--50201396	6	14.3	6	83	6	101	0	23	0	76	0.78
50201304--50201396	24	3.8	24	86	9	118	0	22	0	77	0.77
50201324--50201398	38	1.9	39	84	12	102	0	26	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50201318--50201400	43	1.9	43	85	9	116	0	26	0	73	0.83
50201536--50201574	17	2.2	17	86	9	51	0	15	17	66	1.25
50201907--50202037	29	4.5	28	83	8	138	38	6	22	32	1.79
50201898--50202037	59	2.4	58	83	8	176	36	6	23	33	1.81
50202328--50202387	28	2.1	28	100	0	120	50	3	16	30	1.62
50208966--50208994	12	2.3	13	94	5	51	24	0	0	75	0.80
50209886--50209939	3	18.0	3	100	0	108	33	0	0	66	0.92
50212057--50212111	23	2.3	24	78	3	67	58	0	3	38	1.16
50215071--50215107	13	2.8	14	88	12	60	72	5	16	5	1.21
50220959--50220998	8	5.6	7	86	13	55	17	0	0	82	0.67
50220958--50220998	15	2.8	16	85	14	61	19	0	0	80	0.71
50224594--50224657	34	1.9	32	87	6	92	32	7	10	48	1.67
50224857--50224939	32	2.6	30	81	7	76	37	3	4	54	1.39
50225127--50225175	2	24.5	2	100	0	98	48	0	0	51	1.00
50227446--50227491	24	1.9	24	86	0	65	50	17	21	10	1.77
50230275--50230326	8	6.6	8	74	12	54	73	0	13	13	1.11
50230273--50230312	17	2.4	17	87	8	55	70	0	17	12	1.18
50230284--50230334	22	2.3	23	80	10	70	68	0	15	15	1.21
50230293--50230326	7	4.7	7	85	7	50	76	0	11	11	1.02
50230293--50230332	14	2.7	14	88	7	53	75	0	12	12	1.06
50231694--50232286	132	4.5	132	93	0	981	29	17	23	29	1.97
50232316--50232486	93	1.8	94	82	7	222	24	17	9	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50232971--50233252	131	2.2	131	86	1	395	26	22	25	25	2.00
50233220--50233492	44	6.4	44	68	11	138	32	23	17	26	1.97
50232971--50233316	131	2.6	131	81	2	318	27	21	25	25	1.99
50233790--50233835	19	2.4	19	85	0	65	36	39	6	17	1.76
50235505--50236028	107	5.0	106	85	1	703	30	17	19	32	1.95
50238416--50238458	13	3.3	13	80	0	50	55	4	2	37	1.33
50243435--50243626	72	2.7	72	80	7	234	53	13	5	28	1.60
50246343--50247070	50	14.6	50	72	2	449	24	21	22	31	1.99
50246592--50247082	100	4.9	100	89	1	716	24	21	22	31	1.98
50246494--50247082	200	2.9	196	82	4	678	24	21	21	31	1.98
50264774--50264836	26	2.3	27	94	5	110	39	9	0	50	1.35
50264988--50265259	10	31.4	8	67	28	100	68	0	29	1	1.00
50264985--50265072	14	6.1	14	76	10	63	64	0	35	0	0.94
50265022--50265263	41	6.0	41	91	3	370	69	0	28	2	1.00
50266008--50266062	27	2.0	27	96	0	101	43	14	34	7	1.73
50270105--50270217	40	2.8	39	73	18	97	48	9	4	37	1.56
50270331--50270369	3	13.0	3	88	0	60	64	5	0	30	1.15
50270532--50270567	12	3.0	12	95	0	63	5	19	0	75	1.00
50270702--50270764	26	2.4	27	86	2	83	52	1	9	36	1.44
50271797--50271833	16	2.4	16	86	8	51	2	10	10	75	1.14
50281267--50281416	42	3.6	41	81	8	169	17	20	16	46	1.85
50281271--50281416	21	7.0	21	69	6	89	17	21	15	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50296706--50296790	23	3.7	23	84	9	111	36	15	18	29	1.92
50297037--50297067	13	2.4	13	94	0	53	41	12	0	45	1.42
50302457--50302512	8	6.9	8	97	2	103	37	0	0	62	0.95
50302959--50303017	23	2.6	23	89	2	84	30	18	10	40	1.84
50304313--50304375	20	3.2	20	83	0	90	39	20	30	9	1.84
50310085--50311518	405	3.6	398	83	4	1734	26	24	16	31	1.97
50316827--50316908	30	2.7	30	86	1	119	24	13	12	50	1.76
50321093--50321143	26	1.9	27	88	11	79	29	3	15	50	1.62
50321625--50321759	40	3.4	40	75	10	116	36	22	23	17	1.95
50321798--50322117	41	7.8	41	81	6	326	16	24	25	33	1.96
50326960--50327006	23	2.0	23	95	0	85	44	25	2	27	1.65
50326955--50327007	16	3.3	16	82	15	65	43	24	1	30	1.65
50326927--50327103	34	5.4	34	69	17	133	45	14	1	38	1.55
50327059--50327239	26	6.8	25	66	18	89	43	11	1	43	1.50
50326993--50327333	34	10.4	33	72	19	159	44	11	2	41	1.52
50327115--50327175	22	2.8	22	97	0	113	45	13	0	40	1.43
50327074--50327231	78	2.0	78	97	0	298	43	11	1	43	1.48
50327191--50327293	22	4.9	22	70	20	76	47	11	1	38	1.51
50327196--50327343	62	2.3	65	93	3	248	45	11	3	39	1.57
50327029--50327319	56	5.1	56	77	14	315	45	11	2	40	1.52
50333146--50333316	66	2.6	66	85	3	220	40	18	26	14	1.89
50333286--50333398	21	5.4	21	81	0	64	34	16	41	7	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50333320--50333399	42	1.9	41	89	2	124	33	17	42	6	1.74
50333748--50333978	43	5.2	43	77	9	216	22	19	30	26	1.98
50333748--50333978	86	2.6	87	81	9	254	22	19	30	26	1.98
50336555--50336631	3	25.7	3	91	0	127	32	1	2	63	1.16
50340116--50340205	40	2.2	40	84	5	119	35	22	23	18	1.96
50340116--50340265	40	3.7	41	76	5	112	38	24	20	17	1.93
50340245--50340589	113	3.0	113	90	0	546	26	23	22	27	1.99
50343017--50343047	16	1.9	16	93	0	53	35	25	6	32	1.82
50344189--50344242	27	2.0	28	96	3	101	37	3	3	55	1.35
50344198--50344257	27	2.2	27	84	0	75	41	5	1	51	1.33

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