genome.fa.s13.2.7.7.80.10.50.1000.95.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  95  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)
29058401--29058434	15	2.3	15	100	0	68	47	5	5	41	1.52
29060883--29060957	29	2.6	29	82	0	96	37	45	0	17	1.49
29060912--29060958	22	2.1	22	92	0	76	40	46	0	12	1.42
29060898--29060950	15	3.6	15	79	5	63	39	45	0	15	1.46
29060887--29061010	7	17.1	7	74	6	59	35	44	0	20	1.52
29061548--29061641	39	2.4	39	89	3	136	20	22	19	38	1.94
29061969--29062010	22	1.9	22	85	0	57	47	11	11	28	1.76
29063107--29063162	29	1.9	29	100	0	112	28	12	25	33	1.92
29063092--29063153	7	8.7	7	79	10	63	27	16	27	29	1.97
29064936--29065230	110	2.7	110	89	2	425	33	19	15	30	1.93
29065204--29065246	18	2.4	17	81	11	50	32	9	6	51	1.61
29065685--29065715	13	2.4	13	88	0	53	64	3	0	32	1.09
29065855--29065888	3	11.3	3	93	0	59	67	2	0	29	1.05
29071111--29071160	20	2.3	22	83	16	77	42	10	4	44	1.56
29071118--29071159	20	2.1	20	100	0	84	42	9	4	42	1.58
29072426--29072476	18	2.8	18	87	0	75	47	0	1	50	1.12
29077775--29077925	38	3.9	38	73	7	126	35	24	19	20	1.96
29077822--29077870	19	2.6	19	83	0	62	38	22	16	22	1.92
29077775--29077944	77	2.2	76	82	7	202	34	24	21	20	1.97
29077854--29078002	58	2.6	58	83	1	174	32	24	23	20	1.98
29079352--29079411	11	5.5	11	75	13	54	65	1	0	33	1.03
29079420--29079459	21	2.0	21	90	5	64	67	15	2	15	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29080415--29080465	17	3.0	17	82	5	59	72	0	19	7	1.08
29080539--29080587	21	2.3	22	85	3	64	32	0	2	65	1.04
29081907--29081974	30	2.3	31	82	7	79	42	5	5	45	1.52
29088723--29088871	37	4.0	37	93	0	253	26	21	14	36	1.92
29091260--29091368	57	1.9	57	100	0	218	36	11	20	32	1.87
29094336--29094374	9	4.3	9	81	12	53	53	10	2	33	1.48
29094453--29094545	21	4.3	22	75	11	86	64	5	0	30	1.16
29099699--29099731	16	2.1	16	88	11	50	60	0	3	36	1.12
29102022--29102063	20	2.2	20	82	4	59	54	2	0	42	1.13
29107055--29107235	51	3.6	51	80	3	170	24	17	27	30	1.97
29107690--29107740	25	2.0	25	100	0	102	23	15	23	37	1.93
29109625--29109666	20	2.1	20	86	0	57	47	0	7	45	1.30
29111334--29111366	17	1.9	17	100	0	66	66	3	0	30	1.06
29124937--29125038	48	2.1	48	87	0	141	27	34	20	17	1.95
29127687--29127728	19	2.3	18	91	4	66	64	0	7	28	1.20
29128374--29128405	13	2.4	14	94	5	57	75	0	0	25	0.81
29128373--29128407	14	2.5	15	86	13	56	74	0	0	25	0.82
29135254--29135298	18	2.5	19	89	7	67	75	4	15	4	1.12
29135265--29135298	6	5.5	6	86	6	50	79	2	14	2	0.97
29135290--29135350	26	2.2	27	80	8	70	62	3	26	8	1.39
29151647--29151686	21	1.9	21	84	0	53	25	10	15	50	1.74
29153395--29153502	38	2.8	38	78	0	99	25	22	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29157417--29157452	16	2.1	17	90	10	56	19	0	0	80	0.71
29158641--29158686	12	3.8	12	85	0	56	52	8	0	39	1.33
29164087--29164132	23	2.0	23	82	4	56	50	17	10	21	1.77
29167767--29167882	38	3.0	38	82	1	124	26	25	21	26	1.99
29167857--29167938	36	2.2	36	80	4	83	29	25	19	25	1.99
29169056--29169114	22	2.7	22	91	0	91	23	25	15	35	1.94
29170918--29170990	8	8.4	9	71	23	59	42	1	0	56	1.08
29170914--29170992	19	3.9	20	79	17	65	43	1	0	55	1.07
29170919--29170992	5	15.4	5	74	23	70	41	1	0	56	1.07
29170919--29170992	17	4.4	17	79	14	75	41	1	0	56	1.07
29176782--29176815	16	2.1	16	88	0	50	35	20	0	44	1.52
29183250--29183283	15	2.3	15	90	5	52	70	2	0	26	1.01
29183472--29183535	30	2.1	32	82	11	80	37	0	4	57	1.19
29184026--29184075	23	2.2	23	85	0	64	40	0	8	52	1.31
29189004--29189042	20	2.0	20	89	0	60	41	5	15	38	1.69
29193120--29193192	29	2.5	29	79	0	74	23	4	2	69	1.18
29193580--29193634	3	18.3	3	100	0	110	32	0	0	67	0.91
29194033--29194058	2	13.0	2	100	0	52	50	0	0	50	1.00
29200342--29200372	3	10.3	3	100	0	62	67	0	0	32	0.91
29205922--29205984	30	2.1	30	93	0	108	30	1	9	58	1.39
29206107--29206136	11	2.7	11	89	0	51	70	0	0	30	0.88
29208308--29208384	25	3.0	25	75	3	73	64	5	1	28	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29208339--29208403	32	2.0	32	100	0	130	56	12	3	27	1.50
29208847--29208871	13	1.9	13	100	0	50	56	0	8	36	1.29
29210578--29210607	16	1.9	16	93	6	53	30	0	20	50	1.49
29219259--29219307	20	2.5	20	86	0	62	38	22	26	12	1.89
29222850--29222939	44	2.0	44	95	0	162	27	15	21	35	1.94
29230704--29230762	31	1.9	31	89	3	93	40	8	23	27	1.83
29230993--29231176	51	3.6	51	79	3	176	23	18	27	29	1.98
29231180--29231274	45	2.1	45	92	0	163	26	18	24	30	1.98
29233034--29233213	95	1.9	95	95	0	324	28	16	23	31	1.96
29233745--29233809	26	2.5	26	94	0	112	12	16	21	49	1.79
29242174--29242224	10	5.2	10	72	13	52	56	1	11	29	1.46
29242158--29242252	29	3.4	28	73	13	79	57	1	11	29	1.41
29242527--29242571	22	2.0	22	87	8	65	66	2	6	24	1.27
29242559--29242596	12	3.4	11	86	13	51	65	0	0	34	0.93
29242573--29242639	3	22.3	3	74	6	55	58	4	7	29	1.46
29242522--29242581	22	3.0	20	72	13	52	63	1	5	30	1.25
29242522--29242584	21	3.0	22	68	15	53	63	1	4	30	1.24
29244282--29244332	14	3.4	14	78	19	50	21	1	29	47	1.62
29245546--29245579	17	1.9	17	88	5	50	58	20	2	17	1.51
29246023--29246066	12	3.7	12	78	0	52	63	6	4	25	1.38
29254498--29254539	21	1.9	21	85	9	57	35	4	4	54	1.42
29262482--29262540	22	2.6	22	76	10	57	28	0	5	66	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29269732--29269758	14	1.9	14	100	0	54	66	0	0	33	0.92
29270728--29270787	29	2.1	29	93	0	102	41	20	10	28	1.84
29280072--29280112	19	2.2	19	86	0	55	73	2	4	19	1.13
29294431--29294464	17	2.1	16	88	5	50	17	23	5	52	1.66
29298447--29298481	9	3.8	9	92	3	52	22	2	0	74	0.95
29302674--29303010	165	2.0	165	92	0	566	37	13	23	25	1.92
29313671--29313710	20	2.0	20	100	0	80	20	20	20	40	1.92
29317105--29317135	9	3.3	9	95	4	53	61	0	3	35	1.12
29317147--29317320	9	18.3	9	70	17	70	63	5	0	30	1.20
29317250--29317322	35	2.1	36	84	7	96	65	2	0	31	1.06
29325736--29325792	29	1.9	29	82	10	71	36	10	17	35	1.84
29326556--29326583	14	2.0	14	100	0	56	57	0	0	42	0.99
29328112--29328173	32	1.9	32	90	0	97	43	9	4	41	1.59
29328362--29328412	25	2.2	23	77	16	59	37	9	11	41	1.75
29333359--29333605	50	4.8	50	80	6	230	23	27	21	27	1.99
29337028--29337066	19	2.1	19	100	0	78	30	25	10	33	1.89
29339791--29340032	50	4.7	50	81	7	231	23	27	20	27	1.99
29347085--29347121	9	4.1	9	89	0	56	32	10	10	45	1.74
29347174--29347204	9	3.4	9	90	0	53	38	22	12	25	1.90
29348157--29348222	27	2.4	27	92	0	114	19	24	28	27	1.99
29349375--29349400	3	8.7	3	100	0	52	69	0	30	0	0.89
29349384--29349485	45	2.1	48	84	8	129	38	0	30	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29352912--29352950	15	2.6	15	95	0	69	12	17	41	28	1.87
29358760--29358975	51	4.3	51	89	0	326	27	24	15	32	1.95
29364335--29364413	39	2.0	39	90	0	122	55	6	18	18	1.63
29364497--29364749	106	2.4	105	80	3	267	35	13	16	33	1.88
29365712--29365763	24	2.2	24	85	0	68	50	11	3	34	1.57
29370116--29370167	24	2.2	24	85	0	68	50	7	3	38	1.50
29380660--29380722	20	3.0	22	64	27	55	53	9	3	33	1.49
29383530--29383567	20	1.9	20	100	0	76	47	0	2	50	1.15
29383586--29383672	33	2.7	32	79	13	106	45	17	9	27	1.78
29383665--29383702	20	1.9	19	94	5	67	50	15	2	31	1.58

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