genome.fa.s13.2.7.7.80.10.50.1000.117.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  117  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)
35690757--35691150	175	2.2	176	89	1	594	28	27	23	20	1.99
35691017--35691150	44	3.0	44	69	8	110	31	27	21	19	1.97
35691003--35691147	45	3.3	44	71	7	132	31	26	23	19	1.98
35690757--35691161	88	4.6	88	89	1	607	28	28	23	20	1.99
35691161--35691279	44	2.7	44	83	5	152	26	19	25	28	1.99
35691774--35692153	45	8.7	43	71	11	204	30	21	22	25	1.99
35691774--35692153	44	8.7	44	71	12	201	30	21	22	25	1.99
35691635--35692056	217	1.9	218	87	2	625	30	19	22	27	1.98
35692678--35692722	23	2.0	23	91	4	74	37	4	17	40	1.70
35692688--35692732	23	2.0	23	86	4	65	33	4	15	46	1.66
35697780--35697822	22	2.0	22	85	0	59	13	18	25	41	1.88
35697947--35698091	43	3.4	42	81	6	166	18	19	27	34	1.95
35698014--35698111	43	2.3	43	81	0	106	23	24	25	26	2.00
35697950--35698111	86	1.9	86	80	2	191	22	20	26	30	1.98
35698079--35698322	43	5.6	42	74	6	184	27	31	19	21	1.97
35698633--35698749	21	5.6	21	92	0	180	5	42	12	38	1.68
35698633--35698795	63	2.6	63	83	0	191	4	40	14	39	1.68
35698633--35698788	21	7.4	21	85	0	168	5	41	14	39	1.68
35698633--35698807	21	8.3	21	83	3	111	5	40	15	38	1.69
35698779--35698924	66	2.2	66	86	4	197	13	28	17	39	1.88
35698818--35698948	66	2.0	66	86	3	183	16	24	18	41	1.90
35701974--35702026	24	2.2	24	93	0	88	49	1	5	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35702630--35702697	33	2.1	33	97	0	127	35	30	2	30	1.73
35702804--35702891	43	2.1	42	97	2	167	46	22	14	15	1.83
35703012--35703049	17	2.2	17	90	0	58	42	13	36	7	1.73
35703641--35703680	15	2.8	14	85	7	53	37	2	35	25	1.69
35703655--35703711	23	2.4	22	80	13	60	36	1	42	19	1.62
35703674--35703727	23	2.3	23	84	6	65	38	1	38	20	1.63
35704118--35704194	38	2.0	38	100	0	154	40	23	23	12	1.89
35706033--35706231	41	4.8	41	92	1	308	30	26	27	15	1.96
35706150--35706218	23	3.2	23	62	26	60	28	28	26	15	1.96
35706283--35706408	40	3.2	40	77	5	130	18	26	20	34	1.95
35708201--35708252	27	1.9	28	84	7	72	53	13	13	19	1.72
35716172--35716231	26	2.3	26	88	0	93	35	21	25	18	1.96
35717683--35717745	22	2.8	22	80	7	56	52	1	3	42	1.27
35717703--35717745	22	2.0	22	85	0	59	58	0	2	39	1.11
35723182--35723237	26	2.2	26	86	0	76	69	3	1	25	1.14
35723890--35723940	20	2.5	20	78	18	52	66	5	0	27	1.14
35726074--35726137	31	2.1	31	96	0	119	48	21	7	21	1.75
35730813--35730839	13	2.1	13	100	0	54	48	14	0	37	1.45
35738653--35738704	24	2.2	24	82	0	59	50	5	3	40	1.45
35741754--35741825	26	2.8	25	83	6	90	41	11	15	31	1.82
35756443--35756617	93	1.9	93	100	0	350	30	15	19	34	1.93
35768643--35768696	20	2.7	20	85	0	72	24	7	31	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35771835--35771894	29	2.1	29	84	3	77	50	16	3	30	1.62
35773568--35773616	13	3.8	13	86	8	64	46	28	0	24	1.53
35777911--35777935	5	5.0	5	100	0	50	40	0	0	60	0.97
35779935--35779976	19	2.2	19	100	0	84	71	9	9	9	1.32
35794628--35794652	5	5.0	5	100	0	50	40	0	0	60	0.97
35795716--35795881	33	5.0	33	82	0	197	27	18	21	32	1.97
35800934--35800991	22	2.6	22	81	7	64	41	17	5	36	1.72
35800970--35801006	19	1.9	19	100	0	74	35	16	10	37	1.83
35800973--35801014	19	2.3	19	88	8	61	38	11	14	35	1.83
35801446--35801833	131	3.0	132	91	1	602	26	26	20	27	1.99
35801652--35801834	44	4.2	44	69	10	122	25	27	18	27	1.98
35801837--35802209	89	4.2	89	82	0	422	26	23	22	27	2.00
35801887--35802093	44	4.6	45	68	14	115	27	24	20	27	1.99
35801950--35802084	45	3.0	45	73	10	132	27	24	18	29	1.98
35802207--35802606	177	2.3	178	84	3	520	27	23	18	31	1.97
35802218--35802611	44	8.9	43	70	11	226	26	23	18	31	1.97
35815366--35815411	23	2.0	22	87	4	65	36	17	6	39	1.76
35815390--35815426	19	1.9	19	100	0	74	35	16	10	37	1.83
35815393--35815434	19	2.3	19	88	8	61	38	11	14	35	1.83
35823651--35823675	11	2.3	11	100	0	50	20	0	8	72	1.10
35827631--35828027	87	4.5	88	79	8	371	33	12	12	41	1.80
35827483--35827774	157	1.9	158	80	7	344	30	14	12	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35828034--35828221	84	2.2	84	84	1	234	31	11	11	46	1.75
35827900--35828198	158	1.9	161	82	6	385	33	11	11	43	1.78
35828099--35828282	84	2.2	83	79	5	185	33	13	8	44	1.73
35833517--35833569	18	2.9	18	77	0	61	26	11	32	30	1.91
35845095--35845191	28	3.5	28	94	0	167	28	23	26	20	1.99
35845218--35845267	21	2.4	21	93	0	82	32	42	10	16	1.81
35845510--35845734	27	8.3	27	87	2	217	17	16	20	45	1.86
35845508--35845734	54	4.2	53	85	4	280	18	16	19	45	1.86
35845509--35845734	81	2.8	80	87	5	305	18	16	19	45	1.86
35846881--35846926	13	3.5	13	93	0	83	54	10	15	19	1.70
35863624--35863716	46	2.0	46	100	0	186	50	6	15	27	1.68
35871298--35871351	28	2.0	28	85	3	74	42	16	9	31	1.80
35876049--35876112	20	3.3	20	74	8	71	25	10	3	60	1.44
35876220--35876258	20	2.0	20	89	0	60	53	12	20	12	1.71
35878026--35878060	3	11.7	3	100	0	70	34	31	0	34	1.58
35878059--35878147	3	29.7	3	82	0	106	28	1	3	67	1.14
35878506--35878583	29	2.8	27	84	7	102	32	6	2	58	1.37
35884915--35885812	44	20.9	43	68	10	358	30	21	20	27	1.98
35884907--35885803	129	7.0	128	87	1	1256	30	21	20	27	1.98
35884916--35885674	85	8.8	85	68	11	305	30	21	20	28	1.98
35886703--35886727	7	3.6	7	100	0	50	12	0	0	88	0.53
35887361--35887457	3	32.7	3	75	2	88	28	4	4	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35887818--35887909	29	3.2	28	80	9	96	33	5	1	59	1.27
35890039--35890116	28	2.8	28	82	3	95	56	5	34	3	1.40
35890642--35890695	28	1.9	28	81	7	65	44	33	3	18	1.67
35891260--35891356	28	3.5	28	83	5	124	69	4	23	3	1.21
35892460--35892543	27	3.1	27	79	3	96	60	5	28	4	1.40
35892467--35892555	27	3.3	26	73	7	79	57	4	30	7	1.47
35893114--35893167	28	1.9	28	81	7	65	44	35	1	18	1.61
35893727--35893812	28	3.0	28	82	1	109	60	6	29	3	1.39
35894370--35894398	7	4.1	7	100	0	58	58	0	27	13	1.36
35894707--35894790	28	3.0	27	82	6	114	61	5	29	2	1.32
35898481--35898606	28	4.5	28	82	0	135	61	8	26	2	1.37
35898474--35898609	56	2.4	56	85	0	173	62	8	27	2	1.35
35898558--35898601	13	3.2	13	78	12	52	63	9	27	0	1.24
35899233--35899266	7	4.9	7	96	0	59	17	0	38	44	1.49
35899233--35899277	21	2.1	21	83	0	54	17	2	33	46	1.61
35899233--35899269	14	2.6	14	91	0	65	18	0	35	45	1.50
35900688--35900742	26	2.1	26	86	0	74	18	20	23	38	1.93
35906802--35906892	45	2.0	45	100	0	182	26	23	8	41	1.83
35908276--35908496	40	5.5	39	92	2	289	33	19	29	17	1.95
35908378--35908440	20	3.2	20	71	8	65	30	17	38	14	1.89
35908396--35908459	20	3.2	20	68	16	60	29	18	35	15	1.92
35910818--35910853	18	2.0	18	88	0	54	30	25	13	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35918078--35918223	20	7.3	20	65	9	91	31	18	34	15	1.92
35918068--35918258	40	4.8	40	87	1	260	33	17	31	17	1.93
35925196--35925349	42	3.7	42	90	1	229	31	19	16	31	1.94
35925196--35925349	84	1.8	84	91	0	254	31	19	16	31	1.94
35925808--35925898	47	2.0	46	84	6	121	46	10	3	39	1.56
35926041--35926084	2	22.0	2	92	0	70	45	2	0	52	1.13
35929385--35929427	19	2.4	17	80	7	50	11	27	44	16	1.82
35950838--35950866	12	2.4	12	100	0	58	34	17	13	34	1.89
35950901--35950941	17	2.3	18	80	12	50	31	17	2	48	1.60
35958805--35958842	20	1.9	20	89	10	60	73	2	2	21	1.07

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