genome.fa.s13.2.7.7.80.10.50.1000.175.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  175  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)
50796563--50796614	3	17.0	3	76	11	52	63	7	1	26	1.32
50796649--50796701	23	2.3	23	77	6	54	62	3	9	24	1.42
50798344--50799266	44	21.1	45	77	4	285	24	24	20	30	1.98
50798120--50799325	131	9.2	131	80	4	877	24	24	20	31	1.98
50798336--50799335	175	5.7	175	91	1	1470	24	24	20	31	1.98
50798247--50799328	131	8.3	131	80	3	908	24	24	20	30	1.99
50799260--50799591	125	2.7	125	93	1	569	23	19	21	34	1.96
50799700--50799921	43	5.2	43	64	18	129	25	23	21	29	1.99
50799686--50800023	86	3.9	86	91	0	523	24	23	21	30	1.99
50799743--50799963	43	5.1	42	62	16	103	24	23	22	30	1.99
50802106--50802140	15	2.2	16	95	5	63	2	17	0	80	0.84
50804645--50804710	33	2.0	33	100	0	132	63	12	15	9	1.51
50805233--50805270	19	2.0	19	100	0	76	21	15	21	42	1.89
50805594--50805805	107	2.0	106	85	4	284	33	17	16	31	1.93
50806252--50806308	2	28.5	2	100	0	114	49	0	0	50	1.00
50806423--50806488	2	34.0	2	72	17	50	50	0	7	42	1.31
50806642--50806694	23	2.3	23	77	6	54	62	3	9	24	1.42
50807167--50807197	11	2.8	11	100	0	62	6	48	29	16	1.70
50814067--50814119	24	2.2	24	82	0	61	32	1	7	58	1.37
50814087--50814209	9	13.1	9	76	11	52	34	4	3	56	1.37
50814150--50814211	3	20.7	3	90	6	99	29	1	1	67	1.09
50814489--50814547	26	2.2	28	84	6	77	32	5	1	61	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50814820--50815227	108	3.8	109	92	0	649	31	15	19	34	1.93
50814820--50815227	217	1.9	217	90	1	647	31	15	19	34	1.93
50815850--50815964	38	3.0	38	100	0	230	49	2	5	42	1.39
50821380--50821428	23	2.0	25	84	11	66	38	12	6	42	1.67
50821688--50821765	30	2.6	28	73	15	68	35	23	2	38	1.68
50822218--50822249	12	2.5	13	90	10	57	68	0	31	0	0.90
50822361--50822443	10	7.8	11	73	17	61	79	0	14	6	0.91
50822372--50822427	7	7.4	7	74	21	51	82	0	16	1	0.76
50822354--50822418	19	3.4	18	81	12	60	78	0	18	3	0.88
50822364--50822427	20	3.3	19	78	20	69	81	0	15	3	0.82
50822355--50822428	11	6.1	12	74	16	55	79	0	17	2	0.84
50822372--50822427	23	2.4	23	80	17	71	82	0	16	1	0.76
50822372--50822419	9	5.0	9	83	14	53	83	0	14	2	0.74
50822354--50822428	29	2.6	28	77	10	80	78	0	18	2	0.86
50822358--50822445	15	5.7	15	75	12	63	79	0	14	5	0.91
50822569--50822639	20	3.4	20	74	11	70	21	45	23	9	1.82
50822687--50822748	13	4.8	13	75	23	51	80	0	17	1	0.79
50822680--50822745	7	9.7	7	80	9	57	80	0	16	3	0.84
50822712--50822756	15	2.9	15	80	3	54	80	2	17	0	0.82
50822701--50822755	22	2.5	21	79	5	65	81	1	16	0	0.77
50823031--50823069	20	2.0	20	100	0	78	38	10	10	41	1.73
50823200--50823232	17	1.9	17	93	0	57	36	3	15	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50823302--50823377	19	4.2	19	71	21	65	32	11	10	44	1.75
50823304--50823381	35	2.2	36	84	11	108	29	11	10	48	1.72
50823464--50823530	18	3.8	18	65	20	52	29	11	10	47	1.74
50823471--50823583	34	3.3	33	78	14	122	33	11	9	45	1.73
50824720--50824747	13	2.2	13	100	0	56	92	7	0	0	0.37
50836119--50836814	79	8.8	79	83	8	771	28	15	20	34	1.94
50835974--50836822	160	5.3	160	82	9	884	28	15	19	35	1.93
50836589--50836786	78	2.6	77	82	7	224	31	15	20	32	1.93
50837177--50837306	29	4.4	29	80	7	129	33	23	3	39	1.73
50837178--50837336	29	5.4	29	76	11	96	32	23	3	40	1.72
50837756--50837787	12	2.5	13	90	10	57	68	0	31	0	0.90
50837893--50837957	32	2.0	32	85	11	89	78	0	16	4	0.91
50837910--50837977	23	3.1	23	81	10	81	80	0	16	2	0.82
50837896--50837969	15	4.9	15	75	6	60	78	0	18	2	0.87
50837893--50837977	30	2.8	30	77	10	77	78	0	16	4	0.91
50838096--50838178	43	1.9	43	87	0	121	22	44	22	9	1.82
50838204--50838264	12	4.8	13	75	23	51	80	0	19	0	0.72
50838222--50838271	7	7.4	7	80	14	52	82	2	16	0	0.77
50838222--50838271	15	3.7	14	75	17	52	82	2	16	0	0.77
50838581--50838622	22	1.9	22	100	0	84	42	9	9	38	1.70
50838867--50838940	35	2.1	35	82	9	89	24	12	12	51	1.73
50839024--50839089	17	3.9	16	70	18	53	28	12	12	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50839034--50839142	34	3.1	34	77	12	114	35	11	9	44	1.72
50839041--50839078	19	2.1	19	85	5	51	39	13	10	36	1.79
50847095--50847124	6	5.0	6	100	0	60	66	16	16	0	1.25
50848668--50848728	23	2.6	25	77	15	76	65	6	0	27	1.17
50848781--50848829	3	16.0	3	78	4	53	65	6	2	26	1.27
50853356--50853458	44	2.3	43	91	5	161	62	6	3	27	1.38
50853496--50853552	25	2.3	25	87	6	80	59	1	3	35	1.25
50853495--50853556	26	2.4	25	83	5	79	58	1	4	35	1.29
50853683--50853707	13	1.9	13	100	0	50	64	4	0	32	1.12
50854186--50854241	25	2.2	25	93	0	94	23	26	1	48	1.61
50855313--50855505	88	2.2	88	90	0	296	27	22	18	31	1.97
50855605--50856059	46	9.9	46	91	0	658	28	28	16	26	1.97
50855605--50856368	138	5.6	138	86	6	1035	28	28	17	26	1.97
50856032--50856089	30	1.9	30	100	0	116	39	17	20	22	1.92
50855989--50856129	76	1.9	76	95	0	255	32	24	18	24	1.97
50856065--50856368	46	6.6	46	94	0	500	28	28	18	24	1.98
50857442--50857488	21	2.2	21	88	0	67	25	38	10	25	1.88
50857571--50857623	23	2.3	23	83	6	63	13	15	0	71	1.14
50857571--50857624	16	3.6	14	83	14	63	12	14	0	72	1.13
50858463--50858507	9	5.0	9	84	10	56	8	0	6	84	0.78
50858459--50858509	18	2.8	18	87	3	75	9	0	7	82	0.85
50860531--50860573	19	2.3	17	78	21	50	41	13	23	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50862611--50862665	24	2.3	23	87	6	74	60	0	3	36	1.15
50862609--50862670	26	2.5	23	87	10	79	58	0	4	37	1.20
50862608--50862653	23	2.0	24	95	4	85	56	0	4	39	1.19
50862796--50862820	13	1.9	13	100	0	50	64	4	0	32	1.12
50863628--50863669	19	2.2	19	86	4	57	80	4	0	14	0.86
50869557--50870220	114	5.8	114	89	1	906	23	21	25	28	1.99
50871697--50871759	4	15.8	4	100	0	126	25	0	23	50	1.49
50872479--50872522	18	2.4	19	84	3	54	13	15	13	56	1.67
50872526--50872563	7	5.3	7	87	6	58	2	13	13	71	1.26
50872524--50872563	14	2.7	15	88	3	64	5	12	12	70	1.33
50873032--50873127	45	2.2	43	76	10	99	43	9	1	45	1.43
50873132--50873289	13	12.0	13	72	10	106	41	10	3	44	1.56
50873149--50873298	53	2.8	54	93	2	250	41	10	3	44	1.55
50875557--50875601	21	2.1	21	83	0	54	33	20	44	2	1.63
50876050--50876258	42	5.0	41	83	6	249	26	20	19	33	1.96
50878557--50878593	9	4.1	9	92	0	65	29	10	13	45	1.77
50878614--50878653	9	4.4	9	87	0	62	40	20	12	27	1.88
50879032--50879080	25	2.0	25	88	8	73	30	4	18	46	1.67
50883173--50883266	14	6.6	14	71	10	66	21	0	30	47	1.51
50883688--50883749	7	8.9	7	80	7	54	46	29	0	24	1.53
50883687--50883748	21	3.0	20	80	7	70	46	29	0	24	1.53
50883676--50883749	35	2.1	35	85	5	96	44	29	1	24	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50884068--50884205	61	2.3	61	97	0	258	47	28	2	21	1.65
50884086--50884208	21	6.1	20	67	13	65	44	28	3	23	1.69
50884183--50884240	28	2.0	29	90	3	91	43	25	3	27	1.71
50884179--50884270	35	2.6	36	77	8	109	41	26	5	27	1.77
50884197--50884268	21	3.4	21	75	7	65	44	25	4	26	1.72
50884194--50884276	42	2.0	42	87	0	121	44	27	3	24	1.70
50884335--50884379	14	3.3	13	85	14	56	48	33	0	17	1.48
50884455--50884493	13	2.8	13	85	11	51	46	33	5	15	1.68
50884440--50884499	15	4.2	14	77	16	52	43	35	5	16	1.70
50884573--50884611	13	2.9	13	84	3	51	23	0	28	48	1.51

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