genome.fa.s11.2.7.7.80.10.50.1000.177.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  177  of  210  ( 25152 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)
52831294--52831379	40	2.3	36	80	13	93	32	5	9	52	1.57
52836075--52836847	159	4.8	158	73	15	669	30	12	7	49	1.68
52836636--52836665	16	1.9	15	93	6	51	26	3	0	70	1.03
52836132--52836689	160	3.5	156	75	12	533	30	11	7	50	1.66
52836075--52836857	323	2.5	313	90	3	1088	30	12	7	49	1.68
52837181--52837325	22	6.6	22	71	19	83	0	31	0	68	0.95
52837227--52837350	10	12.8	10	72	14	82	0	29	0	70	0.88
52837219--52837348	44	3.1	44	85	6	182	0	30	0	69	0.89
52837226--52837351	38	3.4	39	81	13	151	0	30	0	69	0.89
52837197--52837348	82	1.9	82	86	8	220	0	29	0	69	0.93
52838288--52838384	7	13.4	7	71	14	63	36	43	4	16	1.67
52838287--52838384	29	3.4	28	70	14	74	35	42	4	17	1.68
52838290--52838384	22	4.4	22	77	13	90	34	44	4	16	1.68
52838403--52838447	13	3.4	13	80	17	56	48	33	4	13	1.62
52838533--52838578	23	2.0	24	87	8	69	39	28	8	23	1.84
52838896--52839338	125	3.5	125	92	2	721	26	20	22	30	1.98
52841415--52841475	29	2.1	29	81	6	70	31	16	11	40	1.84
52848107--52848135	12	2.3	13	94	5	51	82	0	0	17	0.66
52861639--52861677	19	2.1	19	85	9	53	66	0	5	28	1.12
52861648--52861705	22	2.8	20	78	17	55	60	1	1	36	1.17
52862646--52862704	21	2.6	23	76	13	68	61	0	10	28	1.29
52863237--52863283	21	2.2	22	81	11	62	53	4	2	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52871181--52871228	25	1.9	25	87	8	71	37	14	27	20	1.92
52874205--52874245	20	2.1	19	86	4	55	34	4	0	60	1.18
52874190--52874259	27	2.6	26	76	12	70	41	2	0	55	1.14
52874222--52874273	19	2.7	18	80	17	52	34	0	3	61	1.14
52874226--52874286	30	2.0	31	87	3	88	37	0	4	57	1.20
52879725--52879751	13	2.1	13	100	0	54	37	0	22	40	1.54
52880370--52880486	48	2.4	48	83	9	159	34	4	45	16	1.67
52880525--52880569	14	3.1	14	81	18	56	48	0	0	51	1.00
52880533--52880587	22	2.6	21	88	2	74	54	0	0	45	0.99
52880541--52880595	13	4.8	12	73	22	55	54	0	0	45	0.99
52880884--52880946	16	3.9	16	80	0	54	26	20	6	46	1.75
52883571--52883626	17	3.5	17	76	18	66	14	30	41	14	1.85
52883571--52883647	30	2.6	30	91	0	118	14	32	38	14	1.86
52883848--52883898	21	2.5	20	81	9	57	25	39	15	19	1.91
52886828--52886880	14	3.9	13	78	11	54	35	0	11	52	1.37
52888717--52888770	20	2.7	21	75	11	60	27	0	5	66	1.13
52890706--52890794	43	2.1	43	89	0	133	33	17	12	35	1.88
52902041--52902195	33	4.6	33	69	24	117	20	20	27	32	1.97
52901964--52902137	75	2.3	76	89	2	253	20	17	27	34	1.95
52902043--52902239	102	1.9	103	90	1	315	21	20	25	32	1.97
52901934--52902265	178	1.9	177	89	1	522	21	18	27	33	1.96
52903889--52903977	43	2.1	43	86	0	124	32	15	13	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52909313--52909746	213	2.0	213	94	0	751	33	18	18	29	1.95
52913622--52913659	17	2.4	17	86	8	53	34	2	2	60	1.24
52913430--52913667	9	25.6	9	67	16	51	32	5	2	59	1.34
52916377--52916530	9	16.3	9	69	14	62	30	5	1	62	1.25
52916425--52916463	17	2.2	18	86	4	53	28	0	0	71	0.86
52916447--52916494	21	2.3	21	81	0	60	35	4	2	58	1.29
52916450--52916516	31	2.2	30	82	15	84	34	4	1	59	1.26
52916585--52916639	16	3.6	14	77	18	56	34	1	0	63	1.05
52918344--52918385	6	7.0	6	86	0	57	50	11	16	21	1.77
52919756--52919869	43	2.7	43	77	13	126	23	20	28	28	1.99
52920521--52920637	40	3.0	38	83	9	155	38	19	18	23	1.93
52920691--52920815	41	3.0	41	92	0	205	21	20	32	25	1.97
52921762--52921806	14	3.1	15	87	9	67	17	0	48	33	1.48
52921765--52921804	7	5.7	7	85	8	55	12	0	55	32	1.38
52921764--52921811	14	3.4	14	81	16	55	14	2	50	33	1.55
52922873--52922912	17	2.4	17	95	0	71	47	15	22	15	1.82
52924530--52924774	23	10.7	23	78	6	219	28	8	23	39	1.83
52924530--52924774	46	5.3	45	78	8	244	28	8	23	39	1.83
52924551--52924764	114	1.9	114	86	5	308	28	7	23	40	1.82
52925370--52925684	43	7.3	43	89	1	452	18	19	33	28	1.95
52928204--52928273	19	3.5	20	71	21	56	41	2	1	54	1.24
52928257--52928334	9	8.3	9	79	12	77	29	5	2	62	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52929506--52929534	2	14.5	2	100	0	58	48	0	0	51	1.00
52930631--52930668	17	2.2	17	86	9	51	42	0	0	57	0.98
52930926--52930960	12	2.9	12	86	0	52	51	8	2	37	1.47
52935608--52935743	66	2.1	66	94	0	236	27	27	14	30	1.95
52937082--52937133	25	2.1	25	96	0	95	25	5	21	48	1.72
52939077--52939451	93	4.0	93	85	3	470	26	25	16	31	1.96
52942753--52942807	21	2.7	20	88	8	83	23	9	34	32	1.86
52943071--52943122	22	2.3	22	77	9	52	50	5	1	42	1.37
52953128--52953183	29	1.9	29	85	0	76	30	12	19	37	1.89
52953471--52953522	25	2.0	26	88	3	79	38	0	11	50	1.39
52956154--52956218	10	6.6	10	74	10	53	24	6	1	67	1.22
52958642--52958675	17	2.0	17	88	0	50	20	11	20	47	1.81
52959983--52960025	19	2.5	17	81	11	52	48	4	2	44	1.36
52969514--52969576	30	2.1	29	94	2	108	41	26	19	12	1.87
52972686--52972725	2	21.0	2	90	10	66	50	0	0	50	1.00
52972891--52972930	3	13.0	3	89	5	62	65	0	2	32	1.06
52978476--52978555	35	2.3	35	80	4	101	31	5	1	62	1.24
52978596--52978639	22	2.0	22	86	4	63	40	0	2	56	1.11
52978588--52978678	29	3.1	28	83	10	94	37	3	1	58	1.22
52978588--52978728	19	7.4	19	69	17	71	36	4	0	58	1.23
52978588--52978728	10	13.8	10	72	15	74	36	4	0	58	1.23
52983662--52983860	66	3.0	66	95	0	353	27	30	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52986263--52986321	30	2.0	30	96	0	109	38	28	18	13	1.89
52988763--52988801	2	19.5	2	100	0	78	51	0	0	48	1.00
52991880--52992141	131	2.0	131	100	0	524	49	16	12	21	1.78
52993752--52994126	93	4.0	93	87	2	495	26	25	15	32	1.95
52996032--52996079	24	2.0	25	83	4	62	68	6	6	18	1.32
53010541--53010572	15	2.1	16	88	11	50	46	0	0	53	1.00
53015383--53015452	22	3.2	22	100	0	140	51	4	22	21	1.65
53017448--53017482	2	17.5	2	100	0	70	51	0	0	48	1.00
53023479--53023573	46	2.1	46	93	0	163	31	4	11	52	1.57
53024048--53024095	22	2.2	22	92	0	78	12	16	12	58	1.63
53029708--53029785	23	3.4	23	66	25	65	32	2	11	53	1.50
53029701--53029795	46	2.1	46	95	0	172	31	3	11	53	1.52
53032317--53032377	3	20.7	3	93	3	106	67	1	0	31	1.01
53042012--53042056	21	2.1	23	88	12	69	46	0	4	48	1.22
53042197--53042244	22	2.1	23	88	3	71	43	0	33	22	1.54
53043378--53043433	25	2.2	25	77	3	58	35	12	5	46	1.65
53050666--53050723	25	2.3	26	78	3	64	67	5	5	22	1.31
53054619--53054651	17	1.9	18	88	11	52	45	0	12	42	1.41
53055961--53056016	29	1.9	29	85	7	78	42	19	14	23	1.88
53057418--53057467	20	2.5	20	87	9	66	28	2	4	66	1.21
53059525--53059576	24	2.2	24	92	0	86	34	1	7	55	1.39
53060606--53060655	27	1.9	27	84	8	68	60	10	14	16	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53061054--53061084	10	3.1	10	95	0	53	48	0	9	41	1.36
53061118--53061183	33	2.0	33	85	11	91	48	3	9	39	1.50
53061164--53061204	18	2.3	18	87	4	66	51	0	7	41	1.30
53061282--53061333	26	2.0	27	88	3	79	61	1	7	28	1.34
53061982--53062024	2	21.5	2	100	0	86	0	0	48	51	1.00
53062395--53062421	13	2.1	13	100	0	54	7	14	37	40	1.74
53073382--53073418	12	2.9	13	88	8	58	0	16	0	83	0.64
53075333--53075370	15	2.5	16	83	12	53	68	10	0	21	1.19
53076084--53076124	20	2.0	20	90	9	66	63	17	4	14	1.47
53076727--53076809	24	3.3	24	66	33	66	43	8	1	46	1.41

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   
          209   210