genome.fa.s13.2.7.7.80.10.50.1000.21.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  21  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)
6182021--6182078	25	2.3	26	90	3	91	18	6	22	51	1.70
6183218--6183340	24	5.7	23	77	22	149	30	42	4	22	1.72
6183234--6183314	18	4.2	18	82	17	108	29	44	1	24	1.62
6183218--6183338	42	2.9	42	98	0	233	30	42	3	23	1.70
6184457--6184518	31	2.0	31	93	3	108	14	4	20	59	1.53
6187209--6187249	20	2.0	20	85	4	55	53	7	29	9	1.60
6189976--6190018	22	2.0	21	86	13	61	23	11	9	55	1.64
6192169--6192216	14	3.3	14	88	5	60	18	0	37	43	1.51
6192207--6192250	20	2.2	20	88	8	63	20	4	6	68	1.31
6192184--6192216	7	4.7	7	96	0	57	21	0	33	45	1.52
6195440--6195470	5	6.2	5	92	0	53	38	19	22	19	1.93
6197872--6197926	25	2.2	25	86	0	74	38	10	18	32	1.85
6207784--6207849	22	3.0	22	77	4	62	43	18	21	16	1.87
6207857--6207978	32	3.8	32	82	8	149	35	22	21	21	1.96
6208149--6208235	24	3.6	24	78	4	77	45	18	8	27	1.77
6210418--6210451	18	2.0	17	88	11	52	38	14	5	41	1.70
6211153--6211221	22	3.1	21	72	6	57	40	17	23	18	1.91
6211247--6211356	32	3.4	32	85	5	159	37	21	20	20	1.95
6211525--6211613	24	3.7	24	74	7	72	44	17	7	29	1.77
6211687--6211748	27	2.3	27	81	15	67	25	22	14	37	1.92
6215426--6215467	15	2.6	16	81	11	50	69	2	11	16	1.29
6218761--6218816	6	8.8	6	77	16	51	75	0	5	19	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6222235--6222359	12	9.8	12	68	14	54	52	8	12	26	1.66
6222302--6222366	14	4.6	14	72	14	53	53	7	12	26	1.64
6223180--6223234	27	2.0	26	82	6	65	40	3	3	52	1.36
6223820--6223901	40	2.0	41	81	6	96	60	0	1	37	1.04
6240105--6240433	44	7.6	42	64	17	118	26	17	24	30	1.97
6240138--6240654	44	11.7	43	66	17	167	26	18	25	30	1.98
6240073--6240732	132	5.0	132	92	1	1042	26	18	25	29	1.98
6241653--6241710	19	3.2	19	80	9	68	34	3	3	58	1.32
6259620--6260464	50	16.9	50	70	5	497	32	23	20	23	1.97
6259620--6260464	100	8.4	100	87	0	1064	32	23	20	23	1.97
6260629--6260706	41	1.9	41	83	0	102	32	17	19	30	1.95
6261476--6261531	28	2.0	28	96	0	103	21	3	30	44	1.69
6261697--6261730	15	2.1	17	89	10	54	58	0	0	41	0.98
6262507--6262553	18	2.7	17	78	12	51	36	8	0	55	1.31
6271159--6271200	18	2.3	18	91	0	66	47	7	16	28	1.73
6279758--6279836	38	2.1	38	80	4	88	46	21	5	26	1.72
6284326--6284368	19	2.3	19	80	11	52	23	16	0	60	1.35
6292024--6292376	105	3.4	105	85	1	458	38	13	15	32	1.86
6297106--6297298	50	3.8	50	88	0	278	21	31	22	24	1.98
6298113--6298138	13	2.0	13	100	0	52	15	7	15	61	1.55
6304633--6304925	50	5.8	50	89	2	417	20	31	22	25	1.98
6305025--6305051	13	2.1	13	100	0	54	62	7	0	29	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6312148--6312225	33	2.4	32	80	6	84	33	16	23	26	1.96
6322167--6322569	27	15.0	27	83	4	386	18	16	20	45	1.86
6326515--6326581	32	2.1	32	94	0	116	34	16	4	44	1.68
6327950--6328108	43	3.7	43	70	10	137	23	18	27	29	1.98
6330269--6330297	12	2.3	13	94	5	51	44	0	0	55	0.99
6332355--6332412	28	2.1	28	100	0	116	32	13	13	39	1.85
6333196--6333238	17	2.5	17	100	0	86	39	20	23	16	1.92
6339458--6339490	17	2.0	17	88	5	50	36	12	6	45	1.66
6341100--6341148	13	3.5	14	81	15	57	71	6	2	20	1.18
6343287--6343320	16	2.1	16	88	0	50	35	5	0	58	1.22
6353867--6353912	13	3.6	13	83	13	60	50	0	0	50	1.00
6354394--6354447	16	3.4	16	84	0	63	29	31	3	35	1.75
6360136--6360192	29	2.0	29	96	3	107	71	7	3	17	1.22
6361162--6361226	28	2.4	27	84	7	87	60	4	3	32	1.33
6364164--6364215	16	3.2	16	94	0	95	23	0	38	38	1.55
6364451--6364485	18	2.0	17	88	5	52	54	0	0	45	0.99
6364338--6364653	156	2.0	157	95	0	562	43	3	5	48	1.42
6364587--6364628	15	2.7	16	82	14	52	52	2	0	45	1.13
6364596--6364637	15	2.9	15	82	10	52	52	0	0	47	1.00
6364622--6364809	61	3.1	60	68	17	181	47	6	2	43	1.42
6364590--6364829	120	2.0	120	97	1	455	48	5	3	42	1.43
6364706--6364757	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6377195--6377322	23	5.5	24	89	1	154	43	3	30	21	1.71
6379783--6379820	19	2.0	19	100	0	76	15	15	15	52	1.75
6380612--6380740	64	2.0	64	83	3	161	24	20	20	34	1.97
6383128--6383239	25	4.5	25	82	0	134	22	25	18	33	1.97
6385011--6385439	22	19.4	22	84	5	526	24	0	30	44	1.56
6385010--6385410	65	6.1	65	86	4	538	25	0	30	43	1.57
6385682--6385726	21	2.1	21	88	8	65	2	20	37	40	1.65
6385984--6386026	18	2.4	18	84	0	59	46	9	27	16	1.77
6386825--6386862	20	1.9	20	84	10	51	55	7	2	34	1.43
6387800--6387897	51	1.9	51	87	4	144	45	3	24	26	1.67
6387859--6387935	11	6.9	11	73	24	72	44	1	28	25	1.62
6387859--6387935	22	3.5	22	83	16	97	44	1	28	25	1.62
6387859--6387935	33	2.3	33	82	10	102	44	1	28	25	1.62
6388826--6388931	54	2.0	54	92	0	176	31	16	16	36	1.90
6390807--6390838	16	2.1	16	94	5	57	59	0	0	40	0.97
6390799--6390851	24	2.1	26	86	10	74	56	0	0	43	0.99
6390809--6390866	24	2.4	22	78	16	53	55	0	1	43	1.10
6390810--6390868	28	2.1	27	81	12	66	54	0	1	44	1.10
6392025--6392089	23	3.0	22	86	8	89	18	21	21	38	1.93
6396381--6396429	23	2.2	22	82	10	55	30	10	24	34	1.89
6399300--6399447	10	15.6	9	72	15	66	59	2	2	35	1.23
6399301--6399449	20	7.8	18	74	12	93	59	2	2	36	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6399346--6399449	9	10.8	10	71	17	53	61	2	2	32	1.25
6399345--6399457	10	12.0	9	74	15	79	61	3	2	31	1.26
6399345--6399457	19	6.0	18	73	11	84	61	3	2	31	1.26
6399952--6400116	10	16.8	10	66	22	57	36	3	4	55	1.37
6407320--6407367	24	2.0	24	95	0	87	50	10	4	35	1.56
6409865--6410041	94	1.9	94	88	4	268	24	11	20	42	1.86
6409758--6410177	219	1.9	219	83	5	537	27	9	20	42	1.83
6410068--6410384	95	3.1	100	80	13	346	26	9	20	43	1.83
6409897--6410516	327	1.9	323	83	5	800	27	9	21	41	1.84
6410221--6410733	217	2.4	217	80	10	516	27	9	21	41	1.84
6415891--6415920	14	2.1	15	93	6	53	53	3	6	36	1.44
6417974--6417999	7	3.7	7	100	0	52	26	0	15	57	1.38
6418418--6418450	7	4.9	7	85	7	50	39	42	0	18	1.50
6418861--6418886	6	4.3	6	100	0	52	38	46	0	15	1.46
6418418--6419020	224	2.8	221	86	9	774	41	18	2	37	1.64
6419177--6419249	28	2.7	27	83	10	96	35	2	0	61	1.10
6419177--6419259	28	3.1	28	77	10	75	32	2	3	61	1.26
6421030--6421073	23	1.9	24	90	9	74	59	0	0	40	0.98
6425429--6425463	14	2.5	14	95	0	61	34	20	5	40	1.76
6426668--6426702	14	2.5	14	95	0	61	45	2	5	45	1.41
6426586--6426812	62	3.6	62	87	4	305	47	11	6	34	1.66
6433985--6434049	34	2.0	32	88	11	96	35	9	6	49	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6434941--6434991	26	2.0	26	96	0	93	39	3	5	50	1.45
6443649--6443697	21	2.3	22	79	10	57	48	6	0	44	1.27
6460503--6460550	24	2.0	25	83	4	62	68	6	6	18	1.32
6465033--6465085	6	8.5	6	77	8	52	3	1	15	79	0.96
6465032--6465080	25	2.0	25	83	0	62	6	2	14	77	1.05
6465654--6465695	13	3.0	14	80	13	59	42	7	4	45	1.52
6465654--6465695	15	2.9	15	82	10	61	42	7	4	45	1.52
6469746--6469780	4	8.8	4	100	0	70	77	0	0	22	0.78
6469816--6469849	16	2.1	16	100	0	68	58	17	11	11	1.62
6471011--6471074	3	21.3	3	80	6	76	29	6	0	64	1.18

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