genome.fa.s13.2.7.7.80.10.50.1000.180.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  180  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)
52042468--52042535	24	2.8	24	72	24	79	50	5	1	42	1.35
52045339--52045370	4	8.0	4	100	0	64	75	0	0	25	0.81
52045448--52045515	2	35.0	2	79	5	77	48	0	5	45	1.26
52046199--52046232	11	2.8	13	91	8	54	44	11	8	35	1.72
52047290--52047445	33	4.6	33	72	23	144	19	21	26	32	1.97
52047286--52047515	103	2.2	103	96	0	415	20	20	27	31	1.98
52047389--52047594	70	2.8	73	85	10	276	21	20	27	31	1.98
52052704--52052897	33	5.7	33	74	20	177	30	27	21	20	1.98
52052785--52052901	60	2.0	60	96	0	216	31	29	21	17	1.96
52068442--52068467	3	8.7	3	100	0	52	0	34	30	34	1.58
52096846--52096877	2	16.0	2	100	0	64	50	0	0	50	1.00
52105744--52105785	22	1.9	22	85	0	57	38	2	16	42	1.61
52108400--52108440	16	2.5	17	78	21	52	65	9	0	24	1.22
52110776--52111053	108	2.6	107	83	6	327	32	23	17	26	1.97
52112130--52112184	8	6.8	8	76	12	58	36	0	1	61	1.06
52113201--52113246	8	6.5	8	79	20	50	30	0	28	41	1.56
52113206--52113244	19	2.0	20	95	5	71	33	0	25	41	1.56
52113201--52113253	27	2.0	27	96	0	97	30	0	26	43	1.55
52113492--52113591	41	2.6	37	73	6	92	22	20	30	28	1.98
52115682--52115988	67	4.6	67	84	1	337	37	17	22	23	1.94
52115681--52115988	134	2.3	134	83	4	381	37	17	22	23	1.94
52116836--52116868	9	3.8	9	92	4	50	18	3	0	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52117796--52117849	25	2.1	26	89	3	83	29	1	7	61	1.34
52122145--52122207	29	2.1	29	88	2	90	53	14	7	23	1.66
52122781--52122859	12	6.4	12	70	20	56	69	1	26	2	1.09
52123415--52123450	18	2.0	18	94	0	63	41	0	16	41	1.48
52126470--52126510	21	1.9	21	85	5	55	29	36	24	9	1.87
52128942--52128973	16	2.0	16	93	0	55	25	21	31	21	1.98
52128979--52129073	44	2.2	44	84	3	120	32	18	31	16	1.94
52131237--52131303	34	2.0	34	96	0	125	37	19	8	34	1.83
52139112--52139210	23	4.3	23	90	0	162	20	21	27	31	1.98
52142506--52142558	17	3.4	17	65	20	51	37	11	7	43	1.69
52142506--52142567	30	2.1	30	100	0	124	35	12	6	45	1.68
52147814--52147892	29	2.7	29	82	2	86	37	15	26	20	1.92
52147909--52148004	44	2.2	44	88	0	138	30	20	33	15	1.94
52150353--52150409	25	2.3	23	78	18	62	52	5	0	42	1.24
52150812--52150849	18	2.1	18	95	0	67	39	10	26	23	1.87
52152602--52152670	30	2.3	30	89	0	102	39	0	24	36	1.56
52155616--52155728	26	4.4	25	75	10	95	61	5	6	27	1.42
52155658--52155878	26	7.9	27	67	16	96	59	5	5	29	1.42
52155927--52156011	25	3.3	25	74	19	77	65	2	5	25	1.27
52156537--52156567	12	2.6	12	100	0	62	25	51	16	6	1.68
52157573--52157611	19	2.1	19	85	9	53	61	5	2	30	1.31
52159798--52159824	11	2.5	11	100	0	54	62	0	18	18	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52167069--52167096	12	2.3	12	100	0	56	21	28	0	50	1.49
52169653--52169706	7	7.7	7	80	0	54	48	29	0	22	1.51
52169653--52169705	14	3.8	14	87	5	72	49	28	0	22	1.50
52170728--52170995	126	2.1	125	94	0	473	26	23	19	30	1.98
52171714--52171743	12	2.6	12	94	5	53	10	50	40	0	1.36
52171793--52171854	22	2.8	21	73	26	65	64	0	1	33	1.03
52172126--52172165	19	2.1	19	86	9	55	42	0	0	57	0.98
52173544--52173589	6	7.7	6	90	0	74	36	15	47	0	1.45
52179699--52179734	6	6.2	6	90	6	56	2	50	16	30	1.60
52192286--52192344	30	1.9	31	86	3	84	47	3	20	28	1.66
52196166--52196211	21	2.2	21	92	3	76	69	15	2	13	1.28
52200524--52201087	50	11.3	50	70	3	335	23	20	23	32	1.98
52200528--52201116	100	5.9	100	83	3	702	23	21	23	31	1.98
52201170--52201513	98	3.5	98	93	0	544	28	19	17	35	1.94
52201331--52201540	44	4.5	44	71	15	138	30	19	17	33	1.95
52201472--52201633	44	3.7	44	89	1	200	29	17	21	32	1.96
52201801--52202064	44	5.8	43	72	14	147	29	21	17	30	1.97
52201811--52202065	98	2.8	91	76	11	252	29	21	18	30	1.96
52201271--52202038	142	5.4	142	74	15	693	28	20	17	32	1.96
52201900--52202065	44	3.8	43	80	7	167	30	21	17	31	1.96
52201271--52202110	432	1.9	428	83	6	1088	28	20	17	32	1.96
52204455--52204503	6	8.3	6	80	17	50	14	2	10	73	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52205648--52205715	28	2.5	26	81	15	75	54	1	1	42	1.18
52205688--52205767	11	7.5	11	76	16	71	55	1	3	40	1.26
52205675--52205777	40	2.6	40	90	0	161	56	0	2	39	1.21
52205710--52205743	18	2.0	16	88	11	50	58	0	0	41	0.98
52205710--52205744	17	2.0	18	88	5	54	60	0	0	40	0.97
52213152--52213230	13	6.5	13	73	16	80	49	11	1	37	1.47
52213152--52213230	36	2.2	36	95	0	140	49	11	1	37	1.47
52213188--52213239	23	2.3	23	93	0	86	50	9	1	38	1.46
52213188--52213252	23	2.8	23	83	4	69	52	9	1	36	1.43
52217574--52217609	19	1.9	18	88	5	54	63	2	19	13	1.41
52217732--52217756	13	1.9	13	100	0	50	36	0	0	64	0.94
52230266--52230304	20	2.0	20	84	0	51	28	12	7	51	1.67
52232908--52232947	21	1.9	21	85	10	55	37	2	12	47	1.55
52258687--52258756	31	2.3	31	82	4	90	40	21	8	30	1.83
52258687--52258770	31	2.8	30	80	7	89	40	20	10	28	1.86
52261421--52261467	24	2.0	24	91	0	76	29	21	10	38	1.87
52264663--52264757	46	2.1	46	97	0	181	42	22	2	33	1.65
52264675--52264748	24	3.2	24	62	19	57	36	24	2	36	1.70
52269216--52269384	84	2.0	84	98	0	329	39	11	17	31	1.85
52269488--52269526	18	2.1	18	85	9	51	33	5	5	56	1.43
52269493--52269538	17	2.7	18	83	6	60	34	2	4	58	1.30
52269644--52269669	13	2.0	13	100	0	52	38	7	15	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52270585--52270614	14	2.1	14	100	0	60	33	6	0	60	1.23
52272172--52272217	21	2.2	21	77	11	51	50	10	0	39	1.38
52272154--52272271	62	1.9	62	91	0	191	50	11	5	33	1.59
52276253--52276311	29	2.0	30	86	3	84	32	1	11	54	1.47
52285214--52285256	21	2.0	22	86	4	61	51	4	0	44	1.22
52287342--52287390	17	2.9	17	82	8	55	26	6	0	67	1.14
52292963--52293051	45	2.0	45	86	0	124	34	22	15	26	1.94
52293062--52293248	51	3.7	50	80	7	234	31	27	17	24	1.97
52293060--52293244	101	1.8	101	92	3	318	31	27	17	23	1.97
52293228--52293280	26	2.0	26	100	0	106	30	30	11	28	1.91
52295655--52295794	57	2.4	56	82	8	154	29	20	27	23	1.99
52303111--52303141	11	2.8	11	90	0	53	32	0	0	67	0.91
52303111--52303154	22	2.0	22	82	8	54	36	0	2	61	1.09
52305944--52305980	18	2.1	18	89	0	56	59	8	0	32	1.27
52306911--52306986	9	8.4	9	85	5	109	40	22	10	26	1.86
52307089--52307131	18	2.4	18	88	0	59	11	2	44	41	1.53
52313844--52313929	27	3.2	27	98	1	165	27	15	16	40	1.88
52315142--52315281	40	3.6	39	71	10	106	29	22	20	28	1.98
52316127--52316203	4	18.2	4	75	19	68	1	20	5	72	1.11
52341328--52341363	13	2.6	14	91	8	56	86	11	0	2	0.68
52347983--52348007	10	2.5	10	100	0	50	52	0	0	48	1.00
52352778--52352829	24	2.2	24	89	0	77	34	3	7	53	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52361470--52361701	50	4.5	50	77	4	189	28	21	28	22	1.99
52366183--52366236	26	2.0	26	82	10	63	61	7	0	31	1.24
52369863--52369914	25	2.1	25	82	7	61	67	0	3	28	1.08
52370048--52370091	21	2.1	21	83	4	54	40	2	2	54	1.25
52370624--52370669	22	2.1	22	84	8	58	52	2	36	8	1.45
52372281--52372472	100	1.9	100	88	0	285	32	16	13	36	1.88
52379355--52379446	30	3.1	28	80	12	103	35	2	0	61	1.08
52379354--52379445	41	2.3	41	78	17	106	34	2	0	63	1.07
52379414--52379453	21	1.9	21	89	0	62	37	2	0	60	1.11
52379413--52379471	22	2.8	21	80	14	59	40	1	3	54	1.27

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