genome.fa.s4.2.7.7.80.10.50.1000.141.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  141  of  198  ( 23681 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)
44871397--44871754	100	3.6	100	90	3	555	29	20	23	25	1.99
44871414--44871775	50	7.3	50	69	4	246	30	20	24	25	1.99
44873521--44873572	15	3.5	15	77	15	54	30	1	1	65	1.14
44873534--44873573	18	2.2	18	86	0	53	30	2	2	65	1.19
44873516--44873584	19	3.4	18	76	21	66	28	2	2	65	1.22
44873662--44873695	2	17.0	2	100	0	68	50	0	0	50	1.00
44878541--44878572	7	4.6	7	100	0	64	12	0	0	87	0.54
44878977--44879020	17	2.4	19	88	11	65	40	31	15	11	1.83
44880377--44880469	46	2.0	46	100	0	186	36	8	10	44	1.70
44894099--44894224	63	2.0	63	96	0	234	29	21	16	32	1.95
44895933--44895966	18	2.0	17	88	11	52	44	8	0	47	1.34
44896341--44896380	18	2.2	18	86	4	53	50	2	17	30	1.59
44896440--44896513	36	2.1	36	97	0	139	40	8	12	39	1.72
44898555--44898630	23	3.3	23	84	0	116	19	22	27	30	1.98
44903545--44903587	20	2.0	21	82	8	52	30	6	4	58	1.45
44904941--44904965	8	3.1	8	100	0	50	48	24	12	16	1.79
44905831--44905890	30	2.0	31	83	3	77	18	38	0	43	1.50
44909266--44909311	16	3.0	16	71	12	51	41	0	32	26	1.56
44909532--44909568	9	4.1	9	92	0	65	29	10	13	45	1.77
44929405--44929633	69	3.3	69	88	1	307	17	21	24	36	1.95
44929973--44930018	20	2.3	19	85	10	65	13	45	28	13	1.80
44936207--44936254	25	1.9	25	86	0	69	43	20	18	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44936229--44936357	64	2.0	64	82	5	154	34	21	20	24	1.97
44956723--44956820	37	2.7	38	77	6	112	55	3	2	39	1.27
44956758--44956822	11	6.1	11	72	18	57	55	1	1	41	1.18
44956738--44956786	25	1.9	26	84	12	66	53	6	2	38	1.38
44967187--44967265	38	2.1	38	100	0	158	32	26	12	27	1.93
44967798--44967866	15	4.6	15	83	0	84	43	17	39	0	1.49
44967817--44967957	15	8.8	15	73	12	93	53	14	31	0	1.42
44967861--44967959	18	5.7	18	78	7	96	55	13	31	0	1.38
44967817--44967938	33	3.9	33	83	9	148	52	15	31	0	1.43
44967816--44967957	51	2.9	51	86	6	179	52	14	32	0	1.42
44976010--44976062	23	2.4	22	74	3	52	9	20	1	67	1.28
44976055--44976093	18	2.2	18	85	0	51	7	23	2	66	1.30
44981937--44981988	19	2.7	19	93	0	95	38	15	9	36	1.80
44984534--44984583	26	1.9	26	88	8	75	44	10	16	30	1.80
44987351--44987418	26	2.6	26	83	0	91	26	22	20	30	1.98
44987402--44987607	54	3.8	54	85	2	261	29	18	13	38	1.89
44987395--44987624	108	2.1	107	78	3	246	29	18	13	39	1.88
44987810--44987893	23	3.7	23	77	1	71	27	15	14	42	1.85
44987966--44988020	23	2.4	24	90	6	87	18	16	18	47	1.83
44988334--44988371	19	2.0	20	89	5	60	10	42	15	31	1.81
44996386--44996433	9	5.2	9	82	10	53	56	2	2	39	1.23
44996522--44996577	10	5.3	11	77	16	55	51	0	3	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45000842--45000932	40	2.4	36	84	14	105	13	3	26	57	1.52
45000842--45000922	40	2.0	40	97	0	153	14	3	25	55	1.56
45004179--45004250	27	2.6	28	83	12	103	45	6	0	47	1.29
45004298--45004398	27	3.7	27	81	5	98	27	25	29	16	1.97
45004481--45004520	11	3.7	11	86	6	64	70	0	30	0	0.88
45004480--45004518	21	1.9	20	94	5	69	69	0	30	0	0.89
45012422--45012477	27	2.1	27	89	0	85	8	33	14	42	1.77
45013232--45013323	3	32.3	3	70	16	54	0	32	0	67	0.91
45013239--45013386	42	3.7	41	77	17	177	0	32	0	67	0.91
45013257--45013376	43	2.7	46	75	20	130	0	30	0	69	0.89
45013202--45013375	79	2.2	79	91	5	278	0	31	0	68	0.89
45013271--45013377	8	13.5	8	68	23	50	0	29	0	70	0.88
45013419--45013489	27	2.6	27	93	0	115	15	26	29	28	1.96
45013546--45013617	28	2.5	29	89	10	105	45	0	11	43	1.39
45013780--45013821	17	2.4	17	92	4	66	57	9	7	26	1.56
45015317--45015347	6	5.0	6	96	4	53	48	0	35	16	1.46
45017608--45017669	31	2.0	31	87	6	90	29	1	1	67	1.09
45017613--45017680	31	2.2	31	82	10	86	29	1	1	67	1.08
45021451--45021556	37	2.7	39	77	7	117	35	25	14	24	1.93
45022381--45022442	9	6.7	9	74	18	56	1	20	4	72	1.12
45022469--45022554	37	2.4	35	80	16	81	37	3	2	56	1.29
45024488--45024553	13	5.5	13	72	20	72	50	12	0	37	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45024488--45024556	23	3.0	24	91	8	124	50	11	0	37	1.39
45024572--45024620	18	2.7	18	90	0	71	51	6	8	34	1.57
45026153--45026186	5	6.8	5	100	0	68	41	0	0	58	0.98
45026208--45026273	24	2.8	23	84	11	80	75	3	18	3	1.06
45027579--45027625	24	2.0	24	84	16	62	31	0	17	51	1.46
45036960--45037022	32	1.9	33	84	15	87	22	6	1	69	1.19
45038345--45038381	18	2.1	18	89	0	56	59	5	10	24	1.52
45044400--45044489	43	2.1	43	83	4	110	28	18	23	28	1.98
45049839--45049884	20	2.3	20	85	10	60	36	0	4	58	1.18
45050249--45050363	9	12.6	9	69	18	51	43	1	1	53	1.21
45050320--45050364	19	2.4	19	85	3	56	51	0	2	46	1.13
45050325--45050370	19	2.3	20	81	7	58	47	0	2	50	1.13
45050796--45050849	20	2.6	21	81	16	67	40	0	7	51	1.30
45051988--45052012	12	2.1	12	100	0	50	40	16	8	36	1.77
45054729--45054817	11	8.3	11	71	14	51	53	0	1	44	1.07
45054754--45054808	23	2.4	23	87	0	74	56	0	1	41	1.10
45057076--45057207	64	2.0	66	82	8	164	12	21	18	46	1.83
45067407--45067446	2	20.0	2	100	0	80	50	0	0	50	1.00
45067666--45068224	278	2.0	278	100	0	1118	32	10	17	40	1.83
45070809--45070839	16	2.0	15	93	6	53	25	32	19	22	1.97
45090493--45090658	88	1.9	89	94	2	298	35	16	21	26	1.94
45106616--45106675	31	1.9	31	89	0	93	31	11	10	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45107216--45107242	2	13.5	2	100	0	54	48	0	0	51	1.00
45108302--45108335	18	1.9	18	88	5	52	61	8	0	29	1.26
45109931--45109964	16	2.1	16	88	0	50	35	20	2	41	1.68
45110834--45111631	153	5.3	151	83	7	969	29	10	8	51	1.66
45110834--45111631	306	2.6	302	85	5	1128	29	10	8	51	1.66
45114219--45114300	22	3.7	22	86	0	119	30	14	25	29	1.95
45131370--45131402	16	2.0	17	88	5	50	51	0	0	48	1.00
45137530--45137554	2	12.5	2	100	0	50	52	0	0	48	1.00
45139649--45139685	2	18.5	2	88	0	56	45	0	0	54	1.00
45141086--45141111	4	6.5	4	100	0	52	23	0	0	76	0.78
45141718--45141756	3	12.3	3	89	10	60	33	2	0	64	1.08
45146277--45146321	23	1.9	23	82	13	56	15	8	40	35	1.79
45147282--45147338	29	2.0	30	89	6	91	59	1	0	38	1.08
45147381--45147422	22	1.9	22	90	0	66	33	0	33	33	1.58
45147372--45147515	52	2.9	51	79	12	135	38	0	29	31	1.57
45147424--45147515	22	4.2	22	86	8	125	43	0	27	29	1.55
45147446--45147513	12	6.0	12	68	13	54	44	0	25	30	1.54
45149966--45150006	2	20.5	2	100	0	82	48	0	51	0	1.00
45161569--45161718	76	2.0	76	86	2	212	19	24	16	40	1.90
45166246--45166354	47	2.3	47	82	7	123	22	23	22	30	1.99
45166272--45166457	49	3.8	48	78	3	196	20	30	20	29	1.98
45166272--45166450	96	1.8	98	82	5	229	20	30	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45171790--45171933	45	3.2	45	79	3	137	36	22	13	27	1.92
45173643--45173686	23	1.9	23	90	0	70	38	4	9	47	1.56
45174161--45174226	23	2.6	25	90	9	100	40	12	0	46	1.41
45174380--45174529	4	37.0	4	72	18	91	68	0	31	0	0.90
45174386--45174555	40	4.4	38	78	16	140	68	0	30	0	0.94
45174435--45174564	21	6.3	21	71	19	87	69	0	30	0	0.94
45174424--45174592	43	4.1	44	77	16	173	70	0	28	0	0.92
45174380--45174586	30	7.1	29	70	24	111	68	0	31	0	0.94
45174381--45174589	82	2.5	84	82	10	243	68	0	30	0	0.93
45174424--45174555	39	3.2	39	83	9	149	71	0	28	0	0.92

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