genome.fa.s5.2.7.7.80.10.50.1000.55.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   200   201   202   203   204   205   206   207   208   

This is table  55  of  208  ( 24913 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)
15655000--15655061	19	3.4	17	82	10	70	25	3	1	69	1.13
15655672--15655705	3	11.0	3	87	6	50	64	2	2	29	1.22
15656827--15656912	43	2.0	43	90	0	136	53	2	22	22	1.57
15657316--15657355	18	2.2	18	90	0	62	32	7	17	42	1.77
15657956--15657982	9	3.0	9	100	0	54	33	0	0	66	0.92
15660859--15661020	43	3.8	41	76	8	146	27	18	24	29	1.98
15664176--15664222	24	2.0	24	86	0	67	53	2	6	38	1.39
15665343--15665390	19	2.6	19	78	18	57	60	0	0	39	0.97
15665892--15665928	9	4.1	9	89	0	56	32	10	10	45	1.74
15666091--15666147	29	1.9	30	86	10	82	22	5	0	71	1.05
15666127--15666241	41	2.8	39	80	12	108	30	5	3	60	1.35
15666302--15666338	19	1.9	19	94	0	65	29	5	5	59	1.42
15666655--15666698	22	2.0	23	86	13	65	36	2	4	56	1.32
15667426--15667463	19	2.0	19	85	10	51	55	0	0	44	0.99
15667869--15667901	2	16.5	2	93	0	57	51	0	0	48	1.00
15670695--15670736	18	2.2	20	83	8	52	61	4	0	33	1.17
15670692--15670739	19	2.4	21	73	13	57	60	6	0	33	1.22
15671372--15671402	13	2.4	13	94	0	53	67	0	12	19	1.22
15672322--15672375	2	27.5	2	92	3	92	50	1	0	48	1.11
15675034--15675064	9	3.4	9	90	0	53	25	12	22	38	1.90
15675347--15675387	19	2.1	20	82	13	50	26	31	0	41	1.56
15678085--15678156	22	3.3	22	84	0	72	43	19	9	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15678121--15678192	36	2.0	36	97	0	135	45	20	8	25	1.79
15678157--15678458	22	13.7	22	82	2	365	41	17	11	29	1.84
15679244--15679350	42	2.5	42	81	4	108	29	28	17	23	1.97
15685340--15685411	22	3.3	22	80	5	65	44	20	8	26	1.80
15685376--15685447	36	2.0	36	94	0	126	47	20	5	26	1.72
15685412--15685601	22	8.6	22	81	2	229	44	18	8	28	1.80
15685412--15685601	44	4.3	44	90	0	290	44	18	8	28	1.80
15685486--15685569	11	7.7	10	73	15	60	46	19	7	27	1.75
15685415--15685626	66	3.2	65	75	8	185	43	17	8	29	1.79
15685782--15685809	2	14.0	2	100	0	56	50	0	0	50	1.00
15686447--15686555	44	2.5	43	82	8	125	28	28	22	21	1.99
15687859--15687892	16	2.1	16	100	0	68	35	11	29	23	1.90
15703735--15703783	23	2.1	23	81	7	55	34	12	10	42	1.76
15704100--15704161	26	2.4	24	82	15	79	45	1	1	51	1.20
15704104--15704155	26	1.9	27	92	7	88	44	0	1	53	1.11
15708414--15708466	21	2.5	20	79	11	52	66	1	1	30	1.13
15708441--15708466	12	2.2	12	100	0	52	76	0	0	23	0.78
15708473--15708524	22	2.3	22	83	9	61	55	3	0	40	1.18
15708567--15708617	18	2.7	20	90	6	79	33	3	1	60	1.26
15710971--15711013	22	2.0	22	85	0	59	62	9	16	11	1.53
15720466--15720611	41	3.6	41	90	1	204	25	28	21	25	1.99
15720919--15720958	2	20.0	2	85	10	55	50	5	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15721272--15721326	17	3.5	16	78	9	60	41	12	1	43	1.53
15721402--15721454	12	4.2	12	77	13	52	43	7	3	45	1.50
15726577--15726652	11	6.8	11	68	24	52	42	1	2	53	1.23
15726578--15726684	19	5.8	18	71	16	67	42	1	3	52	1.30
15726895--15727020	59	2.1	61	97	2	238	38	14	8	38	1.77
15738546--15738592	24	2.0	24	87	4	69	29	2	2	65	1.15
15739032--15739061	14	2.1	15	93	6	53	36	20	13	30	1.90
15739657--15739707	26	2.0	26	84	0	66	41	23	19	15	1.90
15739756--15740024	32	8.4	32	81	4	233	37	23	20	18	1.94
15739784--15740024	64	3.8	63	82	4	263	37	24	19	18	1.94
15739758--15739994	96	2.5	95	83	2	278	38	22	19	19	1.93
15739785--15740024	96	2.5	96	82	1	266	37	24	19	18	1.94
15740170--15740251	24	3.5	23	80	5	74	46	23	7	23	1.77
15740273--15740407	54	2.5	53	83	3	157	26	22	18	32	1.97
15740273--15740407	27	5.1	27	79	7	134	26	22	18	32	1.97
15740273--15740404	53	2.5	53	83	3	151	27	21	18	32	1.97
15747424--15747453	13	2.3	13	94	0	51	46	3	0	50	1.18
15747483--15747580	44	2.2	44	89	5	144	30	5	29	34	1.79
15750908--15750935	14	2.0	14	100	0	56	64	0	28	7	1.20
15750911--15750955	19	2.5	18	82	17	58	66	0	26	6	1.16
15752514--15752563	15	3.3	15	72	25	50	20	24	10	46	1.81
15753345--15753404	29	2.1	29	87	0	84	46	15	8	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15757165--15757243	29	2.7	29	78	4	77	50	17	5	26	1.67
15770634--15770946	106	2.9	107	82	4	373	29	17	18	33	1.94
15772466--15772510	7	6.3	7	79	5	54	15	15	13	55	1.69
15772754--15772863	37	3.0	37	91	0	175	34	4	14	46	1.65
15772777--15772840	20	3.3	20	68	12	62	31	6	18	43	1.75
15772863--15772946	9	9.4	9	86	2	125	33	9	22	34	1.87
15772866--15772947	26	3.1	26	91	3	128	32	9	23	34	1.87
15775811--15775844	18	1.9	18	88	5	52	76	0	20	2	0.92
15776654--15776691	7	5.4	7	84	9	51	71	2	15	10	1.25
15778013--15778824	44	18.7	44	73	7	572	30	23	23	22	1.99
15778061--15778738	87	7.8	87	78	3	671	29	23	23	23	1.99
15778012--15778741	131	5.6	131	85	2	1009	29	23	23	23	1.99
15778012--15778872	262	3.3	260	84	3	1058	30	22	23	23	1.99
15778061--15778622	218	2.6	218	82	3	702	30	23	23	22	1.99
15780392--15780438	20	2.3	20	86	13	62	34	2	4	59	1.29
15781046--15781358	106	2.9	107	82	4	373	29	17	18	33	1.94
15784052--15784105	22	2.5	21	71	14	56	64	1	7	25	1.30
15787762--15787817	22	2.5	23	79	2	69	53	1	1	42	1.21
15787806--15787860	16	3.4	16	72	18	51	47	1	5	45	1.36
15790624--15790667	13	3.3	14	81	12	65	38	0	4	56	1.20
15795144--15795183	18	2.2	19	86	4	55	20	32	2	45	1.64
15799199--15799249	23	2.2	23	89	0	75	29	5	19	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15802150--15802202	21	2.5	21	84	0	70	30	7	32	30	1.85
15802784--15803011	113	2.0	113	96	0	420	36	18	13	31	1.89
15809055--15809620	100	5.7	100	85	2	656	26	21	21	30	1.98
15809055--15809597	50	10.9	50	70	5	285	26	21	20	31	1.98
15809905--15809962	24	2.4	24	79	0	71	27	25	13	32	1.94
15810841--15810896	5	11.4	5	81	7	62	1	17	3	76	1.01
15824052--15824127	23	3.3	23	92	0	125	22	19	25	32	1.97
15828689--15828742	19	2.7	20	76	15	58	66	7	0	25	1.17
15828710--15828760	18	2.8	18	74	8	59	66	5	0	27	1.14
15828896--15828953	19	3.0	19	80	5	62	27	3	12	56	1.51
15829203--15829227	9	2.8	9	100	0	50	40	0	0	60	0.97
15832085--15832123	21	2.0	20	85	14	55	41	7	5	46	1.55
15836324--15836387	23	2.9	23	80	13	71	26	12	6	54	1.61
15836512--15836555	13	3.4	13	81	12	63	50	11	6	31	1.65
15843840--15843888	23	2.2	21	80	16	55	8	8	6	77	1.12
15843836--15843903	30	2.4	27	83	9	82	10	8	7	73	1.25
15848575--15848776	99	2.0	99	93	0	341	39	36	9	15	1.80
15849166--15849244	32	2.5	32	78	10	90	41	0	2	55	1.13
15851285--15851310	2	13.0	2	100	0	52	50	0	0	50	1.00
15853438--15853511	32	2.4	29	75	16	69	63	2	1	32	1.17
15856771--15856900	43	3.0	43	76	12	149	22	16	28	32	1.96
15862096--15862783	31	22.4	31	72	12	355	43	18	7	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15862110--15862839	92	7.9	92	90	1	1079	43	18	7	31	1.77
15862834--15862884	25	2.0	25	84	3	66	49	9	11	29	1.72
15865130--15865238	23	5.0	22	80	6	116	36	22	21	20	1.95
15865446--15865522	36	2.1	37	85	7	104	32	22	1	44	1.61
15867082--15867120	13	3.1	13	89	10	55	51	2	0	46	1.14
15867050--15867225	86	2.1	86	97	1	336	51	7	2	38	1.44
15867168--15867206	13	3.1	13	89	10	55	51	2	0	46	1.14
15867272--15867304	13	2.8	12	90	9	50	63	0	0	36	0.95
15867297--15867333	13	2.8	13	91	0	56	56	5	0	37	1.22
15867292--15867360	36	1.9	35	82	8	86	63	5	0	30	1.17

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   200   201   202   203   204   205   206   207   208