genome.fa.s7.2.7.7.80.10.50.1000.105.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  105  of  204  ( 24458 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)
32081882--32081940	27	2.1	29	78	15	70	40	1	1	55	1.20
32081888--32081940	27	1.9	28	85	11	74	41	1	1	54	1.22
32086212--32086246	2	17.5	2	100	0	70	48	0	0	51	1.00
32086449--32086563	44	2.7	43	81	11	137	28	28	19	23	1.98
32087439--32087478	20	2.0	21	90	5	64	27	10	2	60	1.42
32095648--32095705	22	2.6	23	78	13	59	32	0	3	63	1.11
32095666--32095709	22	2.0	22	86	8	63	31	0	2	65	1.05
32099091--32099130	21	1.9	21	89	0	62	25	20	35	20	1.96
32099245--32099285	21	2.0	21	85	9	57	29	21	29	19	1.98
32099340--32099386	19	2.5	19	100	0	94	10	40	31	17	1.83
32099941--32100098	79	2.0	79	98	1	309	48	12	5	34	1.62
32102397--32102454	20	2.9	20	84	0	80	39	20	22	17	1.92
32104809--32104873	30	2.2	30	88	0	94	41	9	26	23	1.84
32105143--32105254	53	2.1	53	88	0	161	35	12	22	29	1.91
32105674--32105739	29	2.3	28	82	12	80	30	16	22	30	1.96
32107796--32107820	9	2.8	9	100	0	50	60	16	0	24	1.36
32111971--32112008	16	2.2	18	86	9	53	28	18	0	52	1.45
32115729--32115780	24	2.2	24	85	0	68	51	7	1	38	1.42
32120245--32120384	75	1.9	74	88	4	203	34	24	16	25	1.95
32123818--32123847	7	4.3	7	95	0	51	40	0	46	13	1.43
32138043--32138083	22	1.9	21	85	5	55	60	4	21	12	1.50
32139546--32139587	18	2.3	18	84	8	50	57	2	7	33	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32139559--32139591	18	1.9	17	88	11	50	60	0	9	30	1.27
32140118--32140187	31	2.2	32	80	7	81	38	1	1	58	1.16
32140104--32140187	32	2.7	32	78	12	79	39	1	1	58	1.14
32142970--32143012	17	2.5	17	80	3	50	60	4	2	32	1.30
32144637--32144754	54	2.2	54	87	0	164	23	49	5	22	1.70
32144839--32144872	17	2.0	17	94	0	59	20	64	0	14	1.28
32144792--32144964	68	2.6	67	81	3	204	24	52	2	20	1.61
32153228--32153261	4	8.8	4	93	6	61	23	0	0	76	0.79
32157156--32157213	27	2.0	27	87	9	80	50	0	5	44	1.24
32157243--32157276	16	2.1	16	89	10	52	41	0	0	58	0.98
32161351--32161932	71	8.2	71	86	1	819	42	17	13	26	1.86
32161351--32161932	141	4.1	141	93	0	984	42	17	13	26	1.86
32161351--32161861	23	21.7	22	71	13	169	43	17	13	26	1.86
32162987--32163055	28	2.5	28	87	0	93	31	24	11	31	1.91
32166491--32166517	8	3.4	8	100	0	54	0	11	0	88	0.50
32169710--32169837	70	1.9	67	88	4	193	39	13	14	32	1.85
32172813--32172865	19	2.8	19	94	0	97	37	9	15	37	1.79
32172801--32172872	36	2.0	35	82	15	85	38	9	15	36	1.80
32174883--32174950	29	2.3	29	82	5	84	26	17	17	38	1.92
32175741--32175861	40	3.0	40	78	9	104	19	30	28	22	1.98
32184890--32184982	33	2.8	33	85	3	116	43	15	22	19	1.88
32184966--32185039	28	2.7	27	73	10	78	39	13	22	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32188450--32189043	26	22.9	26	82	3	577	21	16	21	40	1.91
32188738--32188797	25	2.6	22	73	14	57	23	18	20	38	1.93
32198468--32198510	12	3.5	12	79	17	52	11	4	51	32	1.59
32198436--32198514	25	3.1	25	78	7	88	15	7	45	31	1.74
32198468--32198536	25	2.7	25	86	2	84	17	7	47	27	1.73
32198517--32198558	13	3.2	13	86	0	57	21	11	40	26	1.88
32212334--32212377	21	2.3	19	88	11	63	47	0	9	43	1.35
32236972--32237020	26	1.9	26	87	4	73	30	16	12	40	1.85
32238652--32238911	27	9.6	27	87	2	315	43	19	15	21	1.88
32239093--32239172	26	3.1	26	85	0	106	15	18	26	40	1.90
32239277--32239361	28	3.0	28	82	0	107	23	20	23	32	1.97
32240099--32240132	3	11.7	3	93	6	61	35	0	0	64	0.94
32240255--32240289	18	1.9	18	88	11	54	57	8	0	34	1.29
32241024--32241158	3	45.7	3	85	2	184	34	0	5	60	1.19
32242623--32242674	6	8.8	6	97	2	97	17	30	0	51	1.45
32249941--32249984	22	2.0	21	83	12	54	40	0	0	59	0.98
32259596--32259626	9	3.3	9	95	4	53	38	0	3	58	1.15
32270500--32270708	42	5.0	42	88	1	301	32	21	21	25	1.98
32270499--32270708	85	2.5	84	88	1	303	32	20	20	25	1.97
32270501--32270770	85	3.2	84	84	3	299	33	22	19	25	1.97
32270502--32270751	127	2.0	127	82	3	306	32	22	20	25	1.98
32271139--32271210	21	3.4	21	92	0	117	4	45	16	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32276720--32276890	9	19.7	9	85	4	219	31	0	17	50	1.46
32276871--32276910	20	2.1	19	85	4	53	30	0	12	57	1.36
32276891--32276982	29	3.1	29	70	11	96	30	5	13	51	1.63
32276899--32277017	31	4.0	29	72	10	96	33	4	11	50	1.58
32276872--32277008	60	2.3	60	87	5	213	31	3	13	51	1.58
32277085--32277125	15	2.7	15	88	0	55	56	2	4	36	1.34
32277301--32277376	2	38.0	2	97	0	143	50	0	1	48	1.09
32280268--32280511	42	5.8	42	75	5	179	25	20	20	34	1.97
32284026--32284454	51	8.4	51	81	8	335	30	27	13	28	1.95
32284164--32284233	26	2.7	26	76	14	83	30	27	11	31	1.91
32284058--32284454	102	3.9	102	87	4	518	30	27	14	27	1.95
32284059--32284454	153	2.6	151	84	5	485	30	27	14	27	1.95
32287168--32287398	46	5.0	46	97	0	426	33	9	28	28	1.88
32294055--32294097	10	4.2	11	85	14	65	58	0	4	37	1.19
32294054--32294100	20	2.4	20	96	3	87	57	0	6	36	1.24
32294358--32294391	14	2.3	15	90	5	52	44	29	0	26	1.55
32295165--32295249	21	4.0	20	72	11	53	45	31	1	21	1.59
32295173--32295252	14	5.6	14	70	14	56	47	31	0	21	1.51
32295309--32295866	115	4.9	112	75	7	451	25	23	18	32	1.97
32295309--32295829	229	2.3	228	79	6	586	25	23	19	32	1.98
32295309--32295937	229	2.7	227	75	7	581	25	23	19	31	1.98
32297502--32297641	74	1.9	73	83	1	172	29	23	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32297594--32297881	113	2.5	113	78	7	312	26	24	23	26	2.00
32299098--32299145	25	1.9	25	87	8	71	43	14	6	35	1.71
32306549--32306597	17	2.9	16	79	8	53	38	4	2	55	1.31
32311631--32311685	16	3.4	16	89	0	83	34	5	29	30	1.80
32311800--32311850	26	2.0	25	84	3	66	43	0	3	52	1.19
32311813--32311948	59	2.3	57	83	3	164	50	2	0	45	1.22
32318051--32318198	27	5.5	27	82	3	165	18	18	20	43	1.89
32318051--32318198	53	2.8	54	82	4	165	18	18	20	43	1.89
32318051--32318198	80	1.9	80	87	5	219	18	18	20	43	1.89
32334496--32334613	28	4.3	27	86	4	139	55	6	16	21	1.63
32344084--32344163	3	26.3	3	97	2	151	66	1	0	32	1.00
32344268--32344447	93	2.0	90	84	5	236	39	21	8	31	1.83
32344557--32344586	15	2.0	15	93	0	51	70	0	6	23	1.11
32344742--32344892	9	16.1	9	65	17	67	32	3	1	62	1.22
32344764--32344796	17	1.9	17	93	0	57	33	6	0	60	1.21
32344809--32344964	18	8.4	18	67	19	72	31	2	2	63	1.21
32344811--32344891	10	8.3	10	75	14	71	27	3	1	67	1.14
32344802--32344910	40	2.8	40	75	16	115	29	3	1	65	1.20
32345349--32345405	26	2.1	29	87	9	84	68	1	8	21	1.26
32345394--32345423	15	2.0	15	100	0	60	66	0	0	33	0.92
32347271--32347312	21	2.0	22	90	4	68	11	16	28	42	1.84
32347388--32347618	43	5.4	43	79	4	184	30	27	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32350426--32350455	2	15.0	2	100	0	60	50	0	0	50	1.00
32352046--32352111	21	3.0	22	80	8	73	24	3	48	24	1.65
32352120--32352415	147	2.0	148	88	3	445	32	10	14	42	1.80
32353167--32353402	125	1.9	125	87	5	352	41	29	1	27	1.64
32353434--32353466	15	2.3	15	89	5	50	36	30	0	33	1.58
32353857--32354044	41	4.5	42	80	5	179	31	27	18	23	1.97
32354481--32354505	10	2.5	10	100	0	50	72	8	0	20	1.10
32366426--32366470	19	2.4	19	100	0	90	46	11	15	26	1.79
32371722--32371770	16	3.1	16	87	0	71	36	6	34	22	1.79
32372003--32372037	18	2.0	17	88	5	52	54	0	0	45	0.99

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