genome.fa.s13.2.7.7.80.10.50.1000.54.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  54  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)
15903569--15903766	98	2.0	98	97	0	369	35	24	11	28	1.90
15904834--15904924	19	4.8	19	90	1	148	36	15	9	38	1.81
15904811--15904924	38	2.9	38	87	6	149	38	14	8	37	1.78
15905921--15906089	92	1.9	90	82	5	214	30	22	13	33	1.93
15911933--15911995	24	2.6	24	82	12	67	61	31	3	3	1.27
15914025--15914059	17	2.1	17	94	0	61	34	17	17	31	1.93
15920956--15921064	29	3.8	29	75	11	98	28	23	19	28	1.98
15921016--15921093	28	2.7	29	76	9	79	32	25	14	28	1.94
15921046--15921336	61	4.8	60	75	7	230	28	26	13	31	1.93
15921044--15921336	122	2.4	121	77	5	295	28	26	12	32	1.93
15928127--15928157	15	2.1	15	100	0	62	32	6	19	41	1.77
15929572--15929641	27	2.7	26	82	6	81	28	31	12	27	1.93
15931861--15931920	28	2.2	28	82	11	72	21	16	18	43	1.88
15931950--15932067	30	3.9	29	81	10	130	27	20	14	37	1.91
15931937--15932057	60	2.1	58	82	6	145	27	22	14	35	1.93
15937236--15937345	41	2.7	41	89	0	175	31	19	24	24	1.98
15943391--15943513	47	2.6	46	79	2	129	39	5	14	39	1.70
15943386--15943670	157	1.8	157	90	1	464	39	6	14	38	1.73
15943535--15943849	47	6.6	47	78	2	324	39	8	15	37	1.78
15943531--15943862	96	3.5	96	95	1	596	39	7	15	37	1.76
15943966--15944111	41	3.6	41	87	1	213	16	19	30	33	1.94
15943969--15944141	82	2.1	82	82	2	204	17	18	28	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15949175--15949265	27	3.4	27	76	3	94	29	18	17	34	1.94
15950109--15950145	3	12.0	3	94	5	65	64	0	35	0	0.94
15958201--15958269	31	2.2	31	81	0	84	44	2	2	49	1.32
15958916--15958977	27	2.3	27	91	0	97	16	33	35	14	1.89
15959033--15959067	18	1.9	18	88	0	52	74	0	22	2	0.95
15959035--15959150	44	2.6	44	87	2	171	69	0	25	3	1.09
15959031--15959122	10	8.5	11	70	16	50	68	1	26	4	1.15
15962661--15962705	18	2.5	18	92	0	72	15	48	4	31	1.65
15963225--15963377	22	7.0	22	90	0	225	26	26	14	32	1.94
15963779--15963840	27	2.3	27	94	0	106	14	32	33	19	1.92
15965713--15965753	19	2.2	19	95	0	73	31	0	17	51	1.46
15965919--15965975	27	2.1	27	93	0	96	49	12	1	36	1.51
15966016--15966102	22	3.7	22	82	14	120	32	1	13	52	1.48
15966009--15966149	49	2.9	49	84	9	175	31	1	14	51	1.51
15966283--15966349	27	2.5	27	95	0	116	16	31	20	31	1.95
15966410--15966441	12	2.8	12	86	13	50	71	0	0	28	0.86
15970158--15970187	15	1.9	16	93	6	53	13	13	0	73	1.10
15972318--15972374	2	28.5	2	100	0	114	49	0	0	50	1.00
15976814--15976992	43	4.2	44	89	2	258	29	30	17	22	1.97
15976814--15977047	86	2.8	85	81	7	271	30	27	17	23	1.97
15978638--15978917	150	1.9	151	99	0	553	30	16	17	35	1.92
15980528--15980593	22	3.0	22	75	2	62	27	3	45	24	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15981773--15981798	7	3.7	7	100	0	52	30	53	0	15	1.42
15981707--15981880	96	1.8	95	87	6	262	44	26	1	27	1.61
15981886--15981937	14	3.7	14	80	10	52	34	38	0	26	1.57
15981957--15981989	14	2.3	15	94	5	59	36	33	0	30	1.58
15982395--15982673	41	6.8	41	85	0	324	30	27	20	21	1.98
15983232--15983290	30	2.1	29	81	12	70	55	3	1	38	1.26
15987978--15988026	22	2.2	21	79	10	53	22	26	0	51	1.49
15989828--15989871	18	2.4	18	88	0	61	18	27	9	45	1.79
15990292--15990510	49	4.5	49	94	1	377	41	3	9	45	1.53
15993638--15994019	125	3.1	125	90	0	595	31	18	17	32	1.94
15995850--15995898	25	1.9	24	84	12	62	30	4	8	57	1.47
15997210--15997255	9	5.2	9	81	5	58	54	30	0	15	1.41
15997208--15997255	17	2.8	17	96	3	87	52	31	0	16	1.45
15999244--15999295	2	26.0	2	100	0	104	50	0	0	50	1.00
16002710--16002746	3	12.3	3	100	0	74	64	0	0	35	0.94
16005652--16005695	21	2.0	23	86	8	65	36	0	2	61	1.09
16012188--16012318	68	1.9	69	88	1	201	51	6	3	38	1.45
16021277--16021339	29	2.2	28	79	15	76	50	1	0	47	1.10
16023267--16023334	31	2.3	30	79	5	75	26	13	11	48	1.76
16035652--16035685	15	2.3	15	100	0	68	50	14	11	23	1.76
16037209--16037238	12	2.4	12	94	5	51	73	3	16	6	1.18
16038373--16038421	22	2.3	22	78	3	55	40	26	10	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16039579--16039625	20	2.3	20	88	0	67	34	21	34	10	1.88
16049156--16049201	23	2.0	23	86	0	65	23	8	21	45	1.80
16052540--16052573	17	2.0	17	88	0	50	35	23	11	29	1.90
16059466--16059603	72	1.9	74	92	3	235	41	7	5	45	1.56
16061254--16061461	114	1.8	114	82	8	271	29	18	20	31	1.97
16062079--16062124	21	2.2	21	88	7	67	21	0	34	43	1.53
16062132--16062183	7	7.4	7	76	8	52	21	1	46	30	1.62
16062351--16062397	21	2.2	22	84	3	60	17	0	44	38	1.48
16062347--16062412	29	2.3	29	86	2	89	16	0	43	39	1.48
16062347--16062404	14	4.1	14	82	8	73	17	0	43	39	1.49
16062313--16062409	7	13.7	7	73	6	52	21	1	42	35	1.60
16064222--16064277	30	2.0	29	82	10	71	30	3	14	51	1.59
16067517--16067806	41	7.0	40	78	12	307	25	20	22	31	1.98
16067517--16067799	126	2.3	125	91	3	453	26	21	22	30	1.99
16067517--16067799	84	3.4	83	82	8	276	26	21	22	30	1.99
16069445--16069510	31	2.1	31	86	5	89	43	9	13	33	1.76
16071499--16071564	3	21.3	3	73	17	55	36	0	0	63	0.95
16071499--16071562	18	3.7	17	77	10	76	35	0	0	64	0.94
16071499--16071561	21	3.0	21	79	6	65	36	0	0	63	0.95
16071499--16071562	34	2.0	32	85	14	87	35	0	0	64	0.94
16071695--16071726	14	2.3	15	89	10	50	6	3	6	84	0.86
16071723--16071762	18	2.3	17	91	8	71	27	5	0	67	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16075102--16075177	38	2.0	38	94	2	136	32	14	13	39	1.85
16082119--16082179	26	2.3	26	97	0	113	11	27	0	60	1.31
16082556--16082601	22	2.0	25	87	12	71	54	4	19	21	1.61
16086809--16087145	45	7.5	45	89	0	494	37	15	21	25	1.92
16086809--16087203	90	4.4	89	87	1	461	38	15	21	25	1.92
16087126--16087328	46	4.5	44	82	4	201	41	13	22	22	1.89
16087126--16087328	91	2.2	91	82	6	243	41	13	22	22	1.89
16088753--16088782	8	3.6	8	95	4	51	20	3	10	66	1.35
16092032--16092099	20	3.4	20	76	8	75	20	25	19	35	1.96
16092028--16092126	40	2.5	40	86	3	128	24	25	18	32	1.97
16092043--16092107	20	3.3	19	70	12	51	26	26	20	27	1.99
16092053--16092140	20	4.4	20	71	8	63	23	23	17	35	1.95
16093252--16093285	4	8.5	4	100	0	68	23	0	0	76	0.79
16094190--16094320	25	5.2	25	74	3	102	38	23	12	24	1.90
16094183--16094321	50	2.8	50	86	0	179	38	24	12	24	1.91
16094235--16094341	25	4.5	22	69	23	58	37	27	13	22	1.91
16099300--16099356	27	2.1	27	90	3	89	45	19	17	17	1.86
16103666--16103704	20	2.0	20	100	0	78	23	41	5	30	1.76
16119087--16119310	42	5.3	41	75	10	168	36	25	14	23	1.93
16119083--16119346	85	3.1	84	86	3	370	38	25	13	22	1.91
16119117--16119352	43	5.5	42	71	15	171	37	25	13	22	1.91
16122619--16122700	42	2.0	42	85	4	112	29	24	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16125205--16125345	43	3.3	43	72	7	137	34	24	19	21	1.96
16125727--16125785	30	2.0	30	82	0	73	32	23	5	38	1.77
16132812--16132838	13	2.1	13	100	0	54	7	25	29	37	1.83
16133913--16133939	12	2.2	12	100	0	54	14	22	33	29	1.94
16134792--16134831	21	2.0	21	85	5	55	27	22	12	37	1.90
16138020--16138046	14	1.9	14	100	0	54	29	0	25	44	1.54
16148246--16148614	103	3.6	103	87	1	488	31	28	20	18	1.97
16150170--16150748	138	4.2	138	86	2	788	46	5	7	41	1.54
16156804--16156922	50	2.4	51	82	2	125	26	23	18	31	1.97
16156842--16156921	25	3.2	25	67	22	60	26	26	16	31	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