genome.fa.s13.2.7.7.80.10.50.1000.100.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  100  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)
30575236--30575368	50	2.7	50	84	2	133	43	10	12	33	1.76
30576277--30576319	13	3.3	12	76	17	50	48	11	0	39	1.40
30576650--30576707	17	3.1	20	71	28	56	43	3	0	53	1.17
30576653--30576703	18	2.9	18	80	11	61	43	3	0	52	1.19
30584958--30585011	19	2.8	20	88	2	74	46	12	11	29	1.77
30587104--30587162	20	3.0	20	82	5	66	44	10	11	33	1.75
30593150--30593186	14	2.6	14	95	0	65	18	40	0	40	1.51
30594675--30594715	21	2.0	21	90	0	64	29	14	2	53	1.54
30595228--30595252	12	2.1	12	100	0	50	24	24	0	52	1.48
30596157--30596223	27	2.5	27	82	2	82	31	13	11	43	1.80
30596481--30596506	9	2.9	9	100	0	52	11	23	7	57	1.59
30597714--30597749	16	2.2	16	100	0	72	25	0	36	38	1.56
30597730--30597820	45	2.0	45	85	2	121	27	6	28	37	1.82
30597975--30598011	19	1.9	19	100	0	74	54	0	0	45	1.00
30598324--30598358	18	2.0	17	88	5	52	54	0	0	45	0.99
30598186--30598411	120	1.9	120	94	1	400	47	6	1	44	1.36
30598412--30598493	26	3.0	27	75	12	87	52	2	1	43	1.22
30601941--30602013	23	3.3	23	66	11	71	47	4	2	45	1.36
30605003--30605029	13	2.1	13	100	0	54	55	0	0	44	0.99
30608184--30608223	14	2.8	14	88	3	53	22	17	2	57	1.52
30608246--30608326	42	1.9	42	87	5	119	43	18	11	27	1.84
30608604--30608820	42	5.1	43	83	6	214	27	23	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30608653--30608811	85	1.9	85	83	7	207	23	22	23	30	1.99
30608754--30608855	42	2.4	43	82	11	129	22	26	20	30	1.98
30609299--30609349	21	2.4	21	90	6	77	1	43	17	37	1.61
30609214--30609389	87	2.0	86	87	1	253	11	31	17	39	1.85
30614813--30614982	25	7.0	25	73	14	95	28	2	20	48	1.61
30614816--30615197	16	22.9	16	75	13	235	30	1	17	49	1.57
30614987--30615040	21	2.6	21	93	0	90	38	1	12	46	1.53
30614965--30615164	74	2.7	70	75	18	194	33	1	15	49	1.54
30615049--30615090	7	5.7	7	83	10	57	28	2	16	52	1.56
30615072--30615170	44	2.2	44	87	7	155	32	1	15	51	1.50
30614950--30615148	83	2.4	80	75	14	199	32	2	15	49	1.56
30615327--30615369	21	2.0	22	81	4	52	53	2	4	39	1.34
30615436--30615469	17	2.0	17	94	0	59	55	0	0	44	0.99
30615465--30615548	18	4.5	18	77	14	89	44	0	10	45	1.38
30615493--30615551	17	3.4	17	81	4	73	44	0	13	42	1.44
30615457--30615600	39	3.8	36	77	12	121	43	1	11	43	1.49
30616288--30616319	13	2.4	14	85	15	50	65	18	15	0	1.27
30616977--30617964	337	2.9	335	91	1	1550	33	18	17	31	1.94
30618393--30618424	7	4.6	7	100	0	64	31	53	0	15	1.43
30618687--30618747	7	8.6	7	81	3	59	31	44	0	24	1.54
30619385--30619508	41	3.0	40	79	6	133	35	30	18	15	1.92
30619353--30619508	82	1.9	82	84	2	206	34	30	19	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30623438--30623471	17	1.9	18	88	5	52	2	17	0	79	0.86
30628725--30628771	15	3.1	15	78	6	58	44	0	10	44	1.38
30631339--30631379	21	2.0	21	85	9	57	39	4	0	56	1.21
30639812--30639854	22	1.9	23	90	4	70	23	4	6	65	1.37
30643344--30643400	11	5.5	11	75	25	61	56	0	3	40	1.17
30643339--30643408	29	2.4	30	88	4	108	60	0	2	37	1.12
30643358--30643393	19	1.9	19	94	5	65	63	0	2	33	1.08
30643384--30643424	8	5.0	8	82	5	55	58	0	0	41	0.98
30643328--30643424	16	5.5	17	72	18	58	60	0	2	37	1.08
30644217--30644252	2	18.0	2	100	0	72	50	0	0	50	1.00
30645368--30645463	48	2.0	48	100	0	192	27	14	18	39	1.90
30650012--30650050	16	2.5	15	87	4	51	23	0	28	48	1.51
30650085--30650220	39	3.5	39	95	0	236	27	3	22	46	1.68
30650112--30650178	17	3.7	17	70	25	57	28	1	23	46	1.61
30650085--30650237	39	3.9	39	92	0	234	30	3	22	44	1.68
30656004--30656033	15	1.9	16	93	6	53	83	0	16	0	0.65
30656119--30656160	2	21.0	2	100	0	84	50	0	0	50	1.00
30656427--30656470	21	2.1	21	82	0	52	50	4	2	43	1.35
30661061--30661091	15	2.1	15	93	0	53	54	0	3	41	1.16
30665182--30665494	109	3.0	106	83	11	417	35	19	16	27	1.94
30665251--30665450	100	2.0	100	91	3	323	37	18	16	27	1.92
30665521--30665565	21	2.2	20	84	11	56	53	2	15	28	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30666122--30666153	3	10.7	3	93	0	55	65	3	0	31	1.08
30666579--30666603	2	12.5	2	100	0	50	0	52	0	48	1.00
30668204--30668308	37	3.0	33	76	16	95	67	1	4	25	1.20
30668678--30668747	26	2.9	25	78	12	76	28	4	0	67	1.10
30668669--30668759	16	5.4	16	70	16	60	28	4	0	67	1.10
30668718--30668752	15	2.3	15	90	5	52	28	0	0	71	0.86
30668669--30668738	26	2.8	26	81	12	76	27	5	0	67	1.13
30668725--30668758	17	1.9	17	88	5	50	29	0	0	70	0.87
30670778--30670878	51	2.0	51	82	3	123	19	17	29	32	1.95
30673166--30673213	24	2.0	24	95	0	87	25	18	25	31	1.98
30673253--30673344	39	2.4	39	83	3	105	26	18	21	33	1.96
30673160--30673315	63	2.5	63	78	4	188	24	19	24	32	1.98
30689794--30689914	49	2.5	47	85	2	152	28	14	25	32	1.94
30692689--30692792	23	4.3	23	79	15	129	19	21	26	32	1.97
30692699--30692781	29	3.1	28	77	22	106	15	22	27	33	1.95
30692922--30692994	38	1.9	37	86	8	103	45	1	21	31	1.61
30697688--30697746	25	2.4	23	78	13	64	40	11	15	32	1.83
30697688--30697748	26	2.5	24	81	5	77	40	11	14	32	1.82
30697688--30697760	26	2.9	24	71	13	67	41	10	16	31	1.83
30699454--30699486	7	4.6	7	92	7	57	72	0	0	27	0.85
30699454--30699484	15	2.1	15	100	0	62	74	0	0	25	0.82
30701177--30701201	12	2.1	12	100	0	50	44	0	8	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30707269--30707315	24	2.0	24	86	0	67	51	8	6	34	1.58
30709926--30709978	20	2.7	20	82	8	65	45	11	22	20	1.83
30714287--30714348	16	3.9	16	70	8	54	45	1	3	50	1.27
30716910--30716952	22	2.0	21	90	4	68	65	2	6	25	1.30
30717942--30718005	20	3.2	19	78	8	74	9	26	21	42	1.83
30722608--30723257	327	2.0	327	87	0	949	33	24	17	25	1.96
30723533--30723652	62	1.9	62	96	0	222	24	30	22	22	1.99
30727406--30727452	15	3.3	14	78	21	53	31	0	8	59	1.27
30738520--30738601	22	3.7	22	86	0	119	28	15	26	29	1.96
30741565--30741742	70	2.6	68	85	4	232	32	25	17	24	1.97
30741769--30741931	58	2.8	58	80	6	188	39	19	11	29	1.87
30741776--30741951	58	3.1	58	78	7	180	40	17	11	30	1.86
30743834--30743986	51	3.0	51	83	3	193	26	14	28	30	1.95
30751177--30751213	19	1.9	19	88	0	56	64	2	0	32	1.07
30759075--30759172	7	13.9	7	91	2	151	53	0	15	31	1.42
30759534--30759575	18	2.3	19	91	4	68	35	2	2	59	1.23
30759525--30759568	10	4.5	10	78	16	56	36	2	0	61	1.09
30769010--30769059	18	2.7	19	84	9	59	64	0	2	34	1.05
30769010--30769061	19	2.8	18	83	11	61	65	0	1	32	1.04
30770474--30771030	166	3.4	166	89	0	826	31	22	20	24	1.98
30771390--30771435	23	2.0	24	87	8	69	23	8	28	39	1.84
30771587--30771646	22	2.8	22	78	12	70	18	6	43	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30771887--30771939	21	2.5	21	72	6	54	24	0	22	52	1.47
30772328--30772575	83	3.0	83	78	5	252	29	15	20	34	1.94
30774388--30774422	17	2.1	17	94	0	61	42	0	0	57	0.99
30774382--30774480	22	4.6	21	74	19	80	43	2	2	52	1.24
30774498--30774579	12	6.3	13	76	16	64	50	17	0	32	1.46
30774698--30774850	43	3.6	43	84	1	193	30	29	16	22	1.96
30775534--30775584	23	2.2	23	82	0	57	33	7	31	27	1.85
30775682--30775744	29	2.3	29	84	15	89	55	9	11	23	1.64
30775917--30775953	18	2.1	18	100	0	74	32	10	10	45	1.74
30779848--30780138	146	2.0	147	93	1	496	31	13	15	39	1.87

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