genome.fa.s13.2.7.7.80.10.50.1000.108.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  108  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)
32947498--32947569	26	2.8	25	75	6	63	23	0	4	72	1.02
32951802--32951833	10	3.4	10	83	16	50	87	12	0	0	0.54
32951802--32951863	18	3.4	18	79	2	70	80	11	4	3	0.98
32951806--32951870	13	5.0	13	74	18	55	80	12	4	3	0.99
32953456--32954053	143	4.2	142	83	2	711	30	19	21	28	1.98
32953435--32954058	284	2.2	283	83	2	786	29	19	21	28	1.98
32955576--32955681	26	4.2	25	77	8	90	33	1	2	61	1.22
32955960--32956254	146	2.0	145	93	1	502	24	13	13	47	1.79
32960805--32960969	82	2.0	84	81	7	194	45	12	13	28	1.80
32961981--32962017	19	1.9	19	100	0	74	37	8	21	32	1.83
32964533--32964635	35	2.9	35	97	1	188	54	1	7	35	1.41
32967270--32967297	14	2.0	14	100	0	56	28	14	14	42	1.84
32969351--32969392	20	2.1	20	86	0	57	16	0	2	80	0.81
32972631--32972701	6	12.5	6	76	16	71	16	1	4	77	1.00
32972631--32972730	28	3.4	27	81	14	94	19	2	5	74	1.11
32972645--32972730	34	2.6	34	82	10	90	19	2	3	74	1.07
32972785--32972824	18	2.3	17	86	4	53	10	7	0	82	0.84
32974407--32974442	15	2.5	14	86	8	54	44	8	0	47	1.33
32976070--32976136	4	16.5	4	75	17	50	76	0	4	19	0.96
32976081--32976142	18	3.2	19	76	19	56	77	0	4	17	0.94
32976070--32976145	12	6.8	11	73	18	59	76	0	3	19	0.94
32978505--32978555	24	2.1	24	100	0	102	39	23	13	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32980047--32980082	15	2.5	14	86	8	54	44	8	0	47	1.33
32981003--32981045	22	1.9	23	85	4	61	51	27	0	20	1.48
32981598--32981659	15	4.3	15	67	22	51	24	22	0	53	1.46
32982875--32982907	15	2.2	15	94	0	57	30	6	0	63	1.18
32984152--32984224	33	2.2	32	92	4	119	15	32	31	20	1.93
32984340--32984398	30	2.0	30	93	0	100	16	35	27	20	1.94
33003585--33003624	20	2.1	19	95	4	71	35	0	7	57	1.27
33006414--33006449	16	2.2	16	90	0	54	30	0	30	38	1.58
33006817--33006858	15	2.7	16	82	14	52	52	2	0	45	1.13
33006826--33006867	15	2.9	15	82	10	52	52	0	0	47	1.00
33006820--33007110	120	2.4	120	98	1	566	50	5	2	41	1.36
33006935--33006986	15	3.6	15	80	12	56	53	1	0	44	1.11
33006850--33007219	60	6.2	60	66	18	214	50	5	1	42	1.36
33007055--33007167	15	7.6	15	75	14	92	55	1	0	42	1.10
33007062--33007154	21	4.5	21	68	10	75	55	1	0	43	1.06
33007088--33007170	18	4.3	18	67	21	60	59	1	0	39	1.05
33006927--33007290	181	2.0	180	93	3	626	51	4	2	42	1.33
33006820--33007158	120	2.8	118	91	4	443	51	4	1	42	1.33
33007333--33007392	24	2.4	25	86	10	79	53	1	0	45	1.10
33010386--33010412	11	2.5	11	100	0	54	25	0	25	48	1.52
33010501--33010690	97	2.0	97	98	0	371	38	6	12	42	1.68
33011368--33011411	17	2.6	17	96	0	79	61	9	0	29	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33012138--33012166	2	14.5	2	100	0	58	51	0	0	48	1.00
33021569--33021605	19	1.9	19	89	10	58	64	5	5	24	1.36
33022238--33022282	18	2.6	18	85	3	56	35	15	8	40	1.79
33022388--33022428	20	2.0	20	85	9	55	65	19	2	12	1.36
33033019--33033051	16	2.1	16	88	11	50	27	15	0	57	1.38
33036838--33036935	41	2.4	41	80	0	115	25	27	13	33	1.93
33042028--33042054	7	3.9	7	100	0	54	59	14	0	25	1.36
33046226--33046305	3	26.7	3	85	9	110	63	1	1	33	1.10
33047813--33047973	44	3.7	44	80	5	148	29	25	18	26	1.98
33047858--33048067	44	4.8	44	73	9	131	26	23	20	30	1.99
33048100--33048587	125	3.9	125	93	0	807	24	18	22	34	1.96
33048462--33048640	50	3.6	49	72	8	162	24	19	22	33	1.97
33048463--33048694	102	2.3	102	84	3	299	24	19	21	33	1.97
33048561--33049193	100	6.4	100	86	5	722	27	21	20	31	1.97
33048664--33049178	50	10.6	49	76	9	441	27	20	20	31	1.97
33048664--33049193	193	2.7	195	82	8	657	27	20	19	31	1.97
33053394--33053440	21	2.2	21	85	7	60	23	38	12	25	1.90
33053523--33053559	15	2.6	14	91	4	56	13	13	0	72	1.11
33054425--33054468	9	4.8	9	94	5	79	9	0	9	81	0.87
33054419--33054495	19	4.3	18	87	11	97	6	0	12	80	0.89
33054423--33054494	9	8.1	9	76	14	78	5	0	12	81	0.84
33054419--33054492	10	7.3	10	76	14	62	5	0	12	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33058905--33058936	12	2.7	12	95	0	55	71	0	9	18	1.12
33059161--33059201	2	20.5	2	94	0	73	51	0	2	46	1.14
33059277--33059353	3	25.7	3	84	10	104	63	1	1	33	1.11
33060559--33060604	21	2.2	21	84	0	56	47	2	0	50	1.13
33065939--33066020	38	2.2	38	82	4	96	43	1	6	48	1.35
33065955--33066036	37	2.2	37	84	4	103	48	0	4	46	1.23
33066772--33066827	14	3.8	15	73	19	55	35	0	0	64	0.94
33068313--33068360	25	2.0	23	84	8	60	58	4	14	22	1.54
33068551--33068800	132	1.9	132	89	3	387	37	10	26	25	1.88
33073183--33073248	30	2.3	27	80	16	80	3	6	10	80	1.00
33073199--33073274	34	2.3	33	83	2	89	7	9	11	71	1.32
33074134--33074180	19	2.4	21	75	13	55	72	12	2	12	1.21
33074237--33074281	19	2.5	18	82	17	58	35	6	2	55	1.38
33079349--33079393	19	2.3	20	84	3	56	82	4	2	11	0.91
33085965--33086003	18	2.2	17	86	13	53	33	0	20	46	1.51
33086229--33086350	23	5.3	23	87	2	174	20	22	27	29	1.99
33086229--33086350	46	2.7	46	89	2	192	20	22	27	29	1.99
33094174--33094236	31	2.0	31	96	0	117	39	7	9	42	1.67
33094498--33094572	23	3.3	23	88	3	125	21	21	26	30	1.98
33095594--33095624	2	15.5	2	100	0	62	48	0	0	51	1.00
33100150--33100208	29	2.0	30	83	3	75	49	0	30	20	1.49
33100415--33100451	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33100507--33100537	9	3.4	9	90	0	53	38	22	12	25	1.90
33103659--33103688	2	15.0	2	100	0	60	0	50	0	50	1.00
33110599--33110648	26	2.0	25	88	4	73	34	2	4	60	1.27
33115343--33115390	22	2.1	22	84	3	60	54	2	8	35	1.42
33118170--33118210	21	2.0	21	85	9	57	51	4	4	39	1.45
33119856--33119995	69	2.0	69	85	0	190	25	14	22	37	1.92
33124375--33124401	4	6.8	4	100	0	54	77	0	0	22	0.76
33128265--33128307	18	2.4	18	88	0	59	41	44	2	11	1.53
33128415--33128481	9	7.4	9	91	0	98	23	7	23	44	1.79
33131410--33131439	7	4.3	7	100	0	60	56	0	0	43	0.99
33131763--33131797	3	11.7	3	100	0	70	68	0	0	31	0.90
33136834--33136877	22	2.0	21	91	4	70	40	13	4	40	1.65
33137466--33137516	13	3.9	13	92	0	75	35	31	9	23	1.87
33139339--33139369	3	10.3	3	100	0	62	0	32	0	67	0.91
33153262--33153378	44	2.7	44	93	0	198	25	16	29	29	1.97
33155210--33155250	12	3.3	13	80	13	50	34	0	0	65	0.93
33155203--33155270	15	4.7	15	83	3	77	32	4	0	63	1.14
33155213--33155316	30	3.5	29	72	17	88	34	3	3	57	1.35
33165280--33165331	26	2.0	26	100	0	104	46	11	26	15	1.80
33170193--33170240	26	2.0	22	84	15	60	39	14	6	39	1.71
33170460--33170509	25	2.0	24	81	11	57	48	6	6	40	1.52
33172511--33172617	38	2.8	38	81	2	108	38	19	9	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33173025--33173072	20	2.3	21	82	3	53	81	2	12	4	0.93
33173485--33173534	19	2.5	21	87	9	70	40	4	0	56	1.18
33174409--33174434	12	2.2	12	100	0	52	7	15	30	46	1.74
33174423--33174514	40	2.3	38	83	9	112	30	21	26	21	1.99
33174440--33174536	40	2.4	40	82	3	124	36	21	22	19	1.95
33174573--33174722	41	3.6	41	89	0	219	22	21	27	28	1.99
33174822--33174871	26	1.9	26	83	0	64	54	6	14	26	1.63
33175236--33175400	89	1.9	89	87	2	242	27	1	29	41	1.66
33175911--33176198	147	2.0	143	89	5	445	39	14	15	30	1.87
33176217--33176274	21	2.7	22	78	10	66	29	41	3	25	1.72

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