genome.fa.s13.2.7.7.80.10.50.1000.40.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  40  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)
11369366--11369402	13	2.8	13	100	0	74	56	5	8	29	1.51
11371045--11371224	40	4.6	40	80	4	186	22	25	16	35	1.95
11371954--11372057	54	1.9	54	80	7	122	25	25	29	19	1.98
11377312--11377346	16	2.2	16	90	5	54	22	37	8	31	1.85
11380561--11380588	2	14.0	2	100	0	56	50	0	50	0	1.00
11382201--11382239	6	6.3	6	88	5	60	15	20	0	64	1.30
11382212--11382351	57	2.5	56	78	14	146	25	20	5	49	1.69
11394078--11394160	33	2.5	34	88	3	116	43	6	4	45	1.49
11403239--11403272	12	2.9	11	87	12	50	88	0	8	2	0.62
11404426--11404487	17	3.6	17	84	4	81	29	30	25	14	1.95
11404426--11404519	34	2.8	34	82	9	95	28	29	24	17	1.97
11404426--11404504	17	4.7	16	82	3	77	29	29	24	17	1.97
11408721--11408754	16	2.1	17	88	5	52	35	26	11	26	1.91
11411552--11411699	17	8.8	18	70	16	77	33	31	18	15	1.93
11415032--11415099	34	2.0	34	100	0	136	29	20	26	23	1.99
11419202--11419317	54	2.1	54	84	3	144	21	20	31	25	1.98
11443188--11443213	10	2.6	10	100	0	52	84	0	0	15	0.62
11444190--11444292	44	2.3	44	81	6	111	22	17	25	34	1.95
11444287--11444557	43	6.3	42	69	13	169	24	22	22	30	1.99
11444304--11444767	44	10.8	44	68	8	220	25	23	20	30	1.99
11444301--11444642	84	4.0	85	80	8	338	24	23	21	30	1.99
11457558--11457583	13	2.0	13	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11465638--11465698	22	2.9	21	76	13	70	49	26	11	13	1.75
11465609--11465726	42	2.8	42	85	3	157	46	24	12	16	1.81
11471743--11471786	13	3.4	13	80	0	52	27	2	15	54	1.53
11480035--11480074	20	2.0	20	100	0	80	40	20	0	40	1.52
11480308--11480498	42	4.5	42	73	4	134	39	18	18	23	1.92
11480356--11480451	43	2.3	42	85	1	120	34	16	21	27	1.95
11480349--11480510	85	1.9	85	83	5	211	38	18	19	23	1.93
11480252--11480498	127	1.9	128	80	2	282	38	19	17	24	1.92
11481950--11482189	43	5.6	42	75	6	241	22	17	25	35	1.95
11481908--11482215	42	7.3	42	76	6	273	23	16	24	36	1.94
11481905--11482224	85	3.8	85	90	0	462	23	16	24	35	1.95
11492768--11493193	214	2.0	214	81	5	504	33	18	21	26	1.96
11500884--11500915	14	2.3	14	94	0	55	21	12	31	34	1.91
11511878--11511921	2	22.0	2	100	0	88	50	0	0	50	1.00
11518368--11518393	4	6.5	4	100	0	52	76	0	23	0	0.78
11520437--11520476	20	2.0	20	90	0	62	22	7	2	67	1.28
11520927--11520995	35	1.9	36	88	8	106	26	4	5	63	1.35
11526437--11526461	5	5.0	5	100	0	50	20	0	0	80	0.72
11532074--11532115	22	2.1	19	86	13	57	45	2	0	52	1.13
11532836--11532891	25	2.2	24	79	17	69	33	1	1	62	1.16
11558404--11558444	5	8.2	5	100	0	82	0	39	0	60	0.96
11567959--11567983	13	1.9	13	100	0	50	24	12	16	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11569321--11569436	23	5.0	23	83	0	151	22	18	25	34	1.96
11573077--11573138	27	2.3	27	80	5	72	43	12	20	22	1.86
11573117--11573312	27	7.3	27	78	7	184	43	20	12	22	1.86
11573077--11573313	54	4.4	54	81	6	232	43	19	14	22	1.87
11573073--11573313	81	3.0	80	81	4	252	43	19	14	22	1.86
11574545--11574581	9	4.1	9	92	0	65	29	10	13	45	1.77
11576684--11576772	22	4.0	22	89	0	124	29	25	13	31	1.94
11588286--11588325	16	2.6	15	80	7	53	62	7	30	0	1.23
11589265--11589297	14	2.4	14	100	0	66	12	30	0	57	1.35
11596711--11596741	16	1.9	16	100	0	62	19	19	25	35	1.95
11596857--11596887	13	2.4	13	94	0	53	45	3	22	29	1.68
11602848--11602924	27	2.9	27	84	3	102	22	20	15	41	1.90
11602974--11603099	45	2.8	45	84	4	139	24	22	13	39	1.90
11604543--11604600	30	1.9	30	82	6	73	34	10	3	51	1.53
11604879--11604917	21	1.9	20	84	5	51	41	7	0	51	1.31
11606030--11606054	12	2.1	12	100	0	50	24	0	0	76	0.80
11606276--11606322	22	2.1	22	84	7	60	74	2	10	12	1.16
11607701--11607777	5	15.4	5	91	0	100	37	20	6	35	1.79
11613420--11613472	24	2.3	23	76	20	58	41	1	3	52	1.30
11613485--11613528	22	2.0	21	82	4	52	54	0	2	43	1.12
11627551--11627596	23	1.9	25	86	8	69	36	0	4	58	1.18
11628514--11628603	35	2.6	35	83	3	110	36	14	22	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11636318--11636360	19	2.3	19	100	0	86	48	4	0	46	1.22
11637762--11637958	98	2.0	98	96	0	367	44	21	12	21	1.84
11639874--11639923	20	2.6	19	78	9	57	34	0	0	66	0.92
11639893--11639946	21	2.6	21	77	11	56	42	0	5	51	1.25
11644544--11644576	17	2.0	17	88	5	50	54	0	9	36	1.32
11648280--11648337	22	2.6	22	78	5	55	15	12	36	36	1.85
11656398--11656430	15	2.2	15	100	0	66	27	6	6	60	1.44
11666466--11666503	3	12.7	3	88	0	58	31	2	2	63	1.22
11666558--11666628	20	3.2	20	73	21	70	25	4	7	63	1.38
11670920--11671213	40	7.7	39	71	18	210	30	22	22	24	1.99
11671251--11671294	22	2.0	21	86	8	61	25	45	0	29	1.54
11675056--11675135	37	2.2	37	95	0	142	42	17	6	33	1.74
11675646--11675705	18	3.4	18	64	13	52	43	6	10	40	1.64
11675880--11676127	43	5.8	43	88	2	365	21	17	33	27	1.96
11678040--11678097	9	6.4	9	83	0	71	43	22	6	27	1.79
11678339--11678392	18	2.9	18	86	2	72	11	1	46	40	1.50
11685727--11685780	24	2.2	24	83	6	65	35	20	25	18	1.95
11689105--11689154	23	2.2	23	82	13	59	18	4	2	76	1.04
11691494--11691531	18	2.1	19	85	5	51	18	26	2	52	1.58
11695465--11695698	87	2.7	87	95	0	405	26	15	22	35	1.94
11698438--11698493	28	2.0	28	100	0	112	21	17	25	35	1.95
11701523--11701575	22	2.4	22	80	0	61	33	22	15	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11704122--11704157	18	2.1	16	90	10	54	61	2	5	30	1.33
11707288--11707346	24	2.5	24	82	0	64	33	18	13	33	1.90
11707395--11707527	34	3.9	34	81	0	149	27	21	24	26	1.99
11707455--11707511	17	3.4	17	70	18	55	28	22	22	26	1.99
11707697--11707791	14	6.8	14	76	0	91	26	16	17	38	1.91
11709306--11709409	10	10.7	10	76	12	65	63	1	0	33	1.12
11709306--11709403	9	10.3	9	74	12	81	64	2	1	32	1.12
11709306--11709393	19	4.7	18	77	15	81	64	2	1	31	1.13
11709681--11709721	16	2.3	18	88	12	59	29	0	0	70	0.87
11711620--11711644	10	2.5	10	100	0	50	8	0	0	92	0.40
11716496--11716538	16	2.4	19	77	14	56	74	2	16	6	1.14
11716640--11716685	20	2.4	20	82	7	60	50	0	4	45	1.21
11717444--11717491	24	2.0	24	84	12	62	41	2	0	56	1.11
11721749--11721822	28	2.6	28	82	0	85	20	5	21	52	1.66
11721769--11721822	14	3.9	14	72	0	54	22	3	22	51	1.63
11726343--11726387	2	22.5	2	86	0	63	46	0	4	48	1.22
11726337--11726387	18	2.8	18	93	0	84	43	0	5	50	1.26
11726552--11726594	2	21.0	2	95	4	77	48	2	0	48	1.14
11729157--11729202	3	15.3	3	82	8	58	69	0	0	30	0.89
11729633--11729677	23	2.0	23	86	4	65	40	20	4	35	1.72
11729656--11729709	21	2.7	19	78	10	63	38	16	9	35	1.81
11729671--11729710	21	1.9	21	100	0	80	37	15	10	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11730874--11730914	16	2.6	16	84	0	55	43	17	14	24	1.86
11731021--11731061	20	2.0	21	85	4	57	56	4	2	36	1.34
11731085--11731650	234	2.4	232	83	8	676	45	7	8	38	1.61
11731829--11731871	16	2.9	14	83	10	59	55	4	0	39	1.20
11740556--11740609	24	2.2	24	93	0	90	31	18	14	35	1.91
11744335--11744366	7	4.6	7	100	0	64	40	12	31	15	1.85
11744342--11744455	51	2.2	51	95	0	201	32	14	25	28	1.94
11754580--11754724	23	6.2	23	85	3	191	27	13	19	40	1.88
11754580--11754735	71	2.2	69	84	4	179	28	13	19	38	1.89
11755359--11755428	35	2.0	35	100	0	140	22	14	28	34	1.93

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