genome.fa.s13.2.7.7.80.10.50.1000.176.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  176  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)
50885807--50885850	22	2.0	22	82	8	54	47	0	18	34	1.49
50887614--50887732	54	2.2	54	87	0	184	36	20	7	36	1.81
50892400--50892443	3	15.0	3	95	4	81	65	0	0	34	0.93
50893999--50894532	41	12.6	41	74	10	376	26	21	20	30	1.98
50893963--50894532	85	6.7	85	78	7	455	26	20	21	31	1.98
50894210--50894492	126	2.2	126	89	1	433	27	21	21	29	1.99
50893999--50894532	211	2.5	213	85	2	734	26	21	20	30	1.98
50894592--50894841	43	5.8	42	70	9	148	24	24	22	30	1.99
50894636--50894888	87	2.9	87	92	0	407	22	24	23	28	1.99
50894806--50895438	132	4.8	132	90	1	948	24	24	21	30	1.99
50894636--50895410	44	17.7	44	66	12	234	24	24	21	29	1.99
50896392--50896443	5	10.0	5	79	8	59	0	17	3	78	0.89
50896393--50896446	17	3.3	15	87	12	72	0	16	3	79	0.87
50896392--50896446	27	2.0	27	86	6	76	0	18	3	78	0.90
50899631--50899677	19	2.5	20	86	6	62	42	10	21	25	1.85
50901757--50901801	2	22.5	2	91	8	74	46	2	0	51	1.13
50902125--50902165	3	13.7	3	100	0	82	68	0	0	31	0.90
50910821--50911160	174	2.0	174	90	1	538	32	19	14	33	1.92
50920746--50920801	24	2.3	23	82	11	67	37	0	17	44	1.49
50923045--50923079	2	17.5	2	87	0	52	42	0	5	51	1.25
50927233--50927264	3	10.7	3	100	0	64	68	0	0	31	0.90
50927233--50927278	12	3.8	12	91	5	51	65	4	0	30	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50932214--50932247	2	17.5	2	93	6	61	50	0	0	50	1.00
50933057--50933421	124	2.9	125	90	1	570	30	15	20	33	1.93
50936697--50937295	69	8.5	69	82	7	720	24	2	24	49	1.62
50937094--50937213	28	4.4	29	68	17	103	21	2	24	51	1.60
50937147--50937225	28	2.8	29	75	11	83	24	2	25	48	1.64
50936697--50937297	23	25.6	23	81	7	634	24	2	24	49	1.62
50937357--50937499	71	2.0	69	90	6	225	47	13	0	39	1.43
50937363--50937486	25	5.1	25	73	14	125	43	13	0	42	1.44
50937910--50937949	18	2.2	18	90	0	62	40	5	30	25	1.77
50938788--50938826	21	1.9	20	84	5	51	56	7	2	33	1.41
50939798--50939833	11	3.2	11	92	4	54	50	0	33	16	1.46
50941938--50941970	11	3.1	11	91	4	50	0	27	0	72	0.85
50945051--50945144	26	3.8	26	81	16	101	23	25	19	31	1.98
50946934--50946977	21	2.2	20	87	4	61	34	27	0	38	1.57
50949411--50949475	3	21.0	3	72	12	51	61	1	7	29	1.33
50949627--50949676	15	3.6	14	77	17	50	66	2	8	24	1.29
50952165--50952198	2	17.5	2	93	6	61	50	0	0	50	1.00
50958427--50958542	45	2.6	45	83	5	146	42	14	25	17	1.87
50960680--50960712	12	2.8	12	86	4	50	66	0	3	30	1.06
50963753--50963849	27	3.5	27	83	4	113	39	4	7	49	1.50
50964387--50964428	14	2.9	14	83	16	50	54	0	0	45	0.99
50968703--50968750	22	2.1	23	85	11	64	35	0	2	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50981506--50981544	14	2.7	14	88	4	60	61	2	2	33	1.23
50983729--50983789	21	2.9	21	78	4	61	21	32	32	13	1.91
50998973--50999014	17	2.5	17	84	0	57	14	7	2	76	1.10
51000038--51000075	15	2.6	14	91	8	58	84	0	15	0	0.63
51005067--51005170	40	2.6	40	78	6	95	44	7	5	42	1.57
51005379--51005478	20	4.9	18	73	23	67	41	15	8	36	1.76
51005377--51005467	20	4.4	20	77	10	87	40	16	6	36	1.75
51005624--51005692	20	3.5	18	75	11	57	34	13	7	44	1.71
51005580--51005692	60	1.9	60	83	3	147	36	15	8	39	1.78
51005807--51005900	40	2.3	40	80	3	100	36	8	15	39	1.79
51005892--51005931	20	2.0	20	85	0	53	42	10	7	40	1.67
51005985--51006033	20	2.4	21	75	6	55	40	6	8	44	1.59
51015597--51015634	14	2.9	13	84	7	51	50	0	0	50	1.00
51015608--51015653	14	2.9	17	81	12	55	45	8	0	45	1.34
51016824--51016868	22	2.0	22	82	0	54	24	26	28	20	1.99
51018697--51018759	30	2.1	30	90	0	99	55	14	4	25	1.58
51021877--51022056	98	1.9	96	88	4	272	24	15	16	43	1.86
51021867--51022126	106	2.6	97	80	10	290	25	18	17	38	1.92
51021973--51022163	106	1.8	106	79	2	222	31	17	14	36	1.90
51025642--51025713	36	2.0	36	97	0	135	63	5	9	20	1.44
51025729--51025779	19	2.5	20	87	6	68	5	17	1	74	1.11
51026647--51026734	3	31.0	3	70	15	53	35	1	3	60	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51026704--51026772	23	2.9	24	81	10	70	36	5	2	55	1.39
51026965--51027051	45	1.9	45	81	4	104	39	4	2	54	1.34
51028242--51028475	27	9.6	25	70	21	117	63	0	13	22	1.35
51028223--51028475	47	5.3	47	74	20	167	63	0	13	22	1.34
51028249--51028466	72	3.1	70	85	10	277	63	0	13	22	1.32
51028223--51028475	119	2.1	117	85	9	336	63	0	13	22	1.34
51028296--51028469	21	7.6	21	73	20	120	64	0	12	22	1.27
51028390--51028452	16	3.9	16	73	8	56	71	0	11	17	1.14
51028417--51028453	17	2.2	17	90	0	56	75	0	10	13	1.04
51028268--51028503	72	3.2	72	80	15	240	63	0	13	22	1.33
51028462--51028538	5	14.6	5	75	12	66	58	1	22	18	1.46
51028462--51028524	6	11.3	6	75	11	55	57	1	22	19	1.49
51028390--51028504	28	4.4	27	76	19	84	64	0	14	20	1.29
51028473--51028504	16	1.9	17	93	6	57	59	0	18	21	1.38
51028462--51028524	22	2.8	22	82	2	72	57	1	22	19	1.49
51028473--51028520	16	2.9	16	84	9	53	58	2	18	20	1.49
51028460--51028514	28	2.0	28	92	7	94	56	1	20	21	1.51
51028964--51029012	21	2.3	22	79	13	57	63	0	14	22	1.30
51029011--51029213	47	4.4	45	87	7	273	63	0	12	24	1.32
51029063--51029199	21	6.0	21	71	18	87	64	0	13	21	1.33
51029011--51029213	93	2.2	94	91	2	329	63	0	12	24	1.32
51029203--51029302	17	6.2	16	73	17	73	63	2	19	16	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51029248--51029304	19	3.2	18	87	5	80	64	0	19	15	1.28
51029203--51029303	41	2.3	45	80	10	120	63	1	18	15	1.40
51029203--51029298	5	18.0	5	71	18	52	62	2	18	16	1.42
51029257--51029313	17	3.2	16	80	14	60	66	0	21	12	1.23
51029331--51029396	29	2.3	29	79	10	73	27	24	31	16	1.96
51029739--51029777	19	2.1	19	90	0	60	48	0	23	28	1.51
51029805--51029921	18	6.3	18	72	18	71	64	1	13	19	1.36
51029854--51029892	20	1.9	21	89	5	62	64	0	12	23	1.28
51029874--51029905	17	1.9	16	93	6	55	56	0	18	25	1.42
51038034--51038118	38	2.2	39	91	4	136	38	1	5	54	1.33
51064155--51064195	17	2.5	17	88	7	59	39	2	14	43	1.59
51064438--51064598	41	3.9	41	92	0	268	29	19	28	22	1.98
51064438--51064598	82	2.0	82	98	0	313	29	19	28	22	1.98
51064795--51064892	37	2.9	34	76	13	103	28	7	26	37	1.83
51064823--51064901	37	2.1	37	88	0	113	30	5	24	40	1.76
51065567--51065713	45	3.0	50	78	12	189	27	21	21	29	1.99
51067009--51067040	17	1.9	16	93	6	55	15	12	0	71	1.14
51067000--51067052	22	2.3	23	87	9	72	15	13	0	71	1.14
51067841--51067903	31	2.1	29	82	8	72	11	11	4	73	1.24
51067851--51067943	9	9.9	9	76	18	66	10	3	6	79	1.02
51067888--51067945	29	2.0	30	90	6	93	12	0	8	79	0.94
51067878--51067945	9	7.6	9	85	12	95	11	0	8	79	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51069180--51069220	19	2.2	19	86	8	57	41	9	19	29	1.83
51070502--51070526	8	3.1	8	100	0	50	24	16	12	48	1.79
51071668--51071722	3	18.0	3	84	3	65	58	0	7	34	1.26
51073117--51073395	100	2.8	98	80	2	315	24	21	21	33	1.97
51073104--51073387	50	5.7	50	72	3	196	24	19	22	33	1.97
51073107--51073543	96	4.4	98	80	4	409	24	19	22	33	1.97
51073668--51073846	96	1.9	96	96	0	331	22	19	25	32	1.97
51073700--51073896	47	4.1	47	74	8	182	23	19	23	32	1.97
51073770--51074158	50	7.9	49	77	4	370	26	18	22	33	1.97
51073831--51074158	100	3.3	100	90	0	523	26	18	21	33	1.96

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