genome.fa.s13.2.7.7.80.10.50.1000.154.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  154  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)
46052268--46052312	21	2.0	23	87	8	67	46	13	4	35	1.63
46052304--46052379	21	3.7	21	78	7	93	32	11	14	40	1.82
46052317--46052380	19	3.3	19	80	8	67	32	14	14	39	1.85
46052690--46053199	44	11.8	44	69	14	186	27	23	20	29	1.98
46052727--46053197	217	2.2	217	90	0	735	27	23	20	28	1.99
46053072--46053213	45	3.2	44	75	5	124	27	23	18	30	1.98
46053140--46053414	44	6.2	44	65	11	132	25	23	20	30	1.99
46053194--46053464	132	2.1	132	95	0	488	24	23	20	31	1.98
46054707--46054732	8	3.2	8	100	0	52	11	11	0	76	1.01
46055102--46055155	26	2.1	26	100	0	108	48	18	11	22	1.79
46060628--46060670	19	2.3	19	95	0	77	37	13	9	39	1.78
46068514--46068556	21	2.2	19	83	8	50	27	6	13	51	1.67
46075384--46075475	13	6.7	13	68	28	57	41	1	3	54	1.24
46075424--46075474	5	10.2	5	85	14	70	41	0	0	58	0.98
46075424--46075474	19	2.5	20	84	15	70	41	0	0	58	0.98
46075424--46075472	24	2.0	24	92	7	82	40	0	0	59	0.98
46075530--46075563	17	2.0	17	94	0	59	67	0	32	0	0.91
46075529--46075568	13	3.2	13	85	3	55	70	0	30	0	0.88
46076368--46076442	19	4.0	19	70	20	68	36	1	26	36	1.65
46078799--46079006	33	5.7	34	66	21	118	32	26	19	21	1.97
46078800--46079047	75	3.3	74	85	3	345	32	27	18	21	1.97
46086483--46086534	16	3.2	16	94	0	86	28	0	36	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46086750--46086791	15	2.7	16	82	14	52	52	2	0	45	1.13
46086759--46086800	15	2.9	15	82	10	52	52	0	0	47	1.00
46086748--46086958	107	2.0	108	94	0	370	49	4	1	44	1.34
46086853--46086898	16	2.9	16	78	12	51	52	2	0	45	1.13
46086853--46086907	15	3.7	15	79	13	53	52	1	0	45	1.11
46086751--46087014	107	2.5	107	85	6	326	50	4	1	43	1.32
46086853--46087031	59	3.0	58	68	20	152	51	2	2	43	1.28
46090436--46090500	13	5.5	12	70	15	55	52	12	0	35	1.39
46090435--46090507	23	3.2	23	90	1	112	52	12	0	35	1.39
46102855--46103024	90	1.9	90	96	0	313	47	7	16	28	1.73
46104401--46104453	18	3.0	17	81	13	63	60	3	11	24	1.47
46109029--46109149	62	1.9	63	88	5	183	26	30	19	23	1.98
46119452--46119482	13	2.4	13	100	0	62	32	6	16	45	1.72
46119502--46119556	24	2.3	24	96	0	101	30	10	20	38	1.87
46120367--46120406	16	2.7	15	88	11	64	40	0	0	60	0.97
46123735--46123768	16	2.1	16	88	5	50	32	0	0	67	0.91
46128816--46128849	17	2.1	16	88	5	50	47	26	0	26	1.53
46128814--46128989	39	4.5	39	86	1	228	42	22	6	28	1.77
46145620--46145649	3	10.3	3	92	7	53	33	0	0	66	0.92
46145620--46145653	17	2.1	16	94	5	59	32	0	0	67	0.91
46156657--46156698	16	2.5	17	77	14	52	57	0	4	38	1.20
46157410--46157452	20	2.2	20	83	8	52	32	6	2	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46159469--46159578	54	2.0	54	98	0	211	46	27	7	19	1.76
46161477--46161521	22	2.0	22	82	0	54	26	28	15	28	1.96
46162099--46162418	41	7.8	41	74	7	213	16	22	22	38	1.93
46162098--46162383	82	3.5	81	80	5	313	16	22	22	39	1.92
46164673--46164717	10	4.7	10	94	5	76	42	0	13	44	1.43
46164785--46164836	27	1.9	27	88	0	77	40	0	9	50	1.35
46166082--46166147	25	2.6	25	100	0	132	39	4	19	36	1.72
46167811--46167855	21	2.1	21	88	8	65	33	22	44	0	1.53
46168289--46168403	43	2.7	43	81	8	119	28	22	21	26	1.99
46168346--46168568	43	5.2	43	86	4	283	23	24	21	30	1.99
46168346--46168568	85	2.6	86	86	4	283	23	24	21	30	1.99
46169496--46169532	13	2.8	13	95	0	65	45	24	0	29	1.53
46172369--46172461	47	2.0	47	91	0	150	39	20	21	18	1.92
46174161--46174198	19	2.0	19	100	0	76	42	31	5	21	1.75
46182130--46182217	25	3.5	27	68	22	75	25	15	13	45	1.83
46182157--46182240	23	3.6	22	70	19	71	25	16	16	41	1.89
46182115--46182264	48	3.1	48	89	2	221	24	17	16	42	1.89
46193227--46193266	13	3.1	13	79	13	55	32	5	25	37	1.77
46194169--46194219	24	2.1	24	100	0	102	17	47	3	31	1.66
46195246--46195275	15	2.0	15	100	0	60	20	13	26	40	1.89
46201262--46201323	22	2.8	22	92	0	106	12	30	4	51	1.61
46202739--46202825	4	21.8	4	97	0	156	48	24	2	25	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46204462--46204617	31	5.2	30	63	23	78	42	0	4	51	1.26
46204478--46204511	17	2.0	17	100	0	68	41	0	0	58	0.98
46204363--46204649	119	2.4	120	95	2	508	43	0	4	51	1.26
46204527--46204578	22	2.4	21	79	17	54	38	0	5	55	1.24
46204601--46204629	15	1.9	15	100	0	58	44	0	0	55	0.99
46204457--46204622	43	4.1	42	65	24	122	43	0	4	50	1.27
46204790--46204884	45	2.1	44	86	5	129	35	28	5	30	1.79
46204864--46204897	16	2.1	16	94	0	59	23	32	5	38	1.79
46207607--46207742	66	2.0	68	94	5	240	37	14	19	27	1.91
46207773--46207822	25	2.2	23	82	13	59	54	6	10	30	1.58
46219648--46219679	15	2.0	17	88	11	50	62	9	0	28	1.26
46221529--46222984	44	33.2	44	65	13	311	28	19	19	32	1.96
46221477--46222991	701	2.2	701	93	0	2586	28	19	19	32	1.96
46221477--46222991	175	8.7	175	92	0	2431	28	19	19	32	1.96
46231506--46231578	27	2.7	27	79	14	71	56	5	5	32	1.45
46231703--46231764	3	20.3	3	79	9	63	58	0	6	35	1.24
46233742--46233958	45	4.9	45	74	1	195	25	24	19	30	1.98
46233708--46233905	89	2.2	89	86	1	281	24	24	18	32	1.97
46233733--46233957	89	2.5	89	84	2	256	26	24	19	30	1.98
46244298--46244390	45	2.1	45	100	0	186	51	12	4	31	1.59
46244740--46244787	19	2.5	20	74	12	57	35	0	4	60	1.16
46244804--46244845	18	2.2	20	87	8	61	35	0	4	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46245400--46245442	19	2.1	21	83	8	54	58	2	0	39	1.11
46250761--46250787	2	13.5	2	100	0	54	51	0	0	48	1.00
46251940--46252036	38	2.6	38	83	3	115	41	29	14	14	1.85
46252004--46252058	22	2.5	22	93	0	92	43	32	12	10	1.78
46256415--46256452	20	1.9	20	89	10	60	63	7	0	28	1.23
46256420--46256461	19	2.2	19	83	8	50	69	7	2	21	1.25
46256973--46257019	18	2.6	18	82	0	58	51	0	2	46	1.13
46262178--46262207	2	15.0	2	100	0	60	50	0	0	50	1.00
46274876--46274901	12	2.2	12	100	0	52	23	23	7	46	1.78
46275279--46275329	26	1.9	27	84	4	68	39	17	21	21	1.93
46277282--46277313	12	2.5	13	90	10	57	50	0	0	50	1.00
46277372--46277404	3	11.0	3	100	0	66	0	33	0	66	0.92
46277468--46277500	13	2.5	13	100	0	66	24	9	18	48	1.76
46279247--46279331	37	2.3	37	85	4	118	41	12	14	31	1.83
46295782--46295844	6	10.7	6	90	8	85	25	0	1	73	0.93
46297310--46297350	13	3.3	13	81	18	52	34	0	14	51	1.43
46297617--46297674	30	1.9	30	85	0	80	20	39	27	12	1.88
46307948--46308005	22	2.7	21	79	10	71	43	18	5	32	1.73
46307977--46308028	19	2.9	17	75	10	50	32	21	11	34	1.89
46310486--46310550	26	2.4	27	84	2	78	18	16	40	24	1.91
46318407--46318785	189	2.0	186	95	1	677	30	11	20	37	1.88
46327828--46327885	30	1.9	30	100	0	116	29	22	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46338509--46338546	18	2.1	18	90	0	58	63	0	7	28	1.23
46343713--46343758	23	2.1	23	84	8	60	54	8	0	36	1.32
46346253--46346283	6	5.2	6	96	0	53	77	0	19	3	0.90
46351022--46351060	12	3.1	12	79	13	51	46	2	0	51	1.14
46353718--46353742	12	2.1	12	100	0	50	40	16	0	44	1.47
46353853--46354019	21	8.0	21	77	6	142	47	13	19	20	1.82
46353836--46354021	42	4.5	42	77	7	184	46	14	19	19	1.84
46360879--46360960	25	3.2	25	81	5	76	29	24	28	18	1.98
46360891--46360963	25	3.0	25	85	2	94	32	20	28	17	1.96
46368080--46368121	12	3.5	12	75	12	50	64	2	9	23	1.35

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