genome.fa.s13.2.7.7.80.10.50.1000.104.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  104  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)
31670658--31670719	21	2.9	21	73	4	52	61	3	4	30	1.33
31673236--31673277	20	2.1	20	86	8	59	14	35	28	21	1.92
31677081--31677376	50	5.8	50	82	6	294	21	29	21	27	1.99
31684649--31684945	50	5.8	50	81	5	285	21	27	21	28	1.99
31688303--31688333	14	2.2	14	100	0	62	6	12	0	80	0.89
31691588--31691657	6	11.7	6	100	0	140	15	0	0	84	0.63
31692830--31692876	13	3.5	13	77	13	51	17	14	14	53	1.74
31702618--31702719	44	2.3	46	83	6	120	37	19	23	19	1.94
31702643--31703016	129	2.9	129	91	3	585	31	20	21	27	1.98
31702732--31702974	85	2.9	85	80	9	232	28	22	22	27	1.99
31702656--31702998	44	7.9	44	74	13	293	31	20	21	26	1.98
31702672--31703060	129	3.0	129	87	3	462	32	20	19	27	1.97
31703137--31703350	44	4.8	44	82	6	243	31	21	20	27	1.98
31703137--31703350	89	2.4	90	84	4	272	31	21	20	27	1.98
31703189--31703371	44	4.1	44	80	4	154	31	19	20	28	1.97
31704896--31704937	3	14.0	3	84	0	57	30	2	2	64	1.19
31704895--31704937	15	2.9	15	92	0	68	30	4	2	62	1.28
31705011--31705075	23	3.0	21	70	17	53	27	4	3	64	1.28
31705155--31705188	17	1.9	18	88	5	52	38	8	0	52	1.33
31708884--31708908	10	2.5	10	100	0	50	80	0	12	8	0.92
31717368--31717545	40	4.5	40	85	3	236	39	26	19	14	1.90
31717368--31717545	79	2.3	79	93	0	302	39	26	19	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31717524--31717565	21	2.0	21	95	0	75	40	19	26	14	1.89
31726196--31726236	20	2.0	21	85	4	57	56	19	9	14	1.66
31728597--31728622	12	2.2	12	100	0	52	19	15	7	57	1.62
31752448--31752491	22	2.0	22	100	0	88	18	9	13	59	1.60
31758959--31759022	20	3.2	20	84	8	78	39	1	3	56	1.25
31758966--31759029	19	3.4	18	82	8	67	37	1	3	57	1.24
31759788--31759831	3	14.7	3	100	0	88	31	0	0	68	0.90
31762089--31762561	42	11.3	42	86	0	622	36	25	17	20	1.94
31762967--31763009	12	3.4	12	81	9	50	0	4	18	76	0.95
31770811--31770921	51	2.2	51	98	0	213	29	23	14	32	1.94
31771001--31771043	19	2.4	17	78	21	52	46	18	0	34	1.50
31773262--31773303	21	2.0	21	90	0	66	45	2	16	35	1.61
31776562--31776586	13	1.9	13	100	0	50	88	0	12	0	0.53
31776759--31776820	31	2.0	31	84	3	81	54	8	3	33	1.46
31776706--31777050	147	2.4	145	85	6	466	42	10	4	42	1.59
31788211--31788243	11	2.9	11	95	4	57	45	12	6	36	1.66
31791971--31792001	16	2.0	16	93	6	55	45	0	12	41	1.42
31794592--31794654	2	31.0	2	96	3	117	49	0	1	49	1.10
31794876--31794906	5	6.2	5	100	0	62	58	0	0	41	0.98
31795809--31795846	2	19.0	2	100	0	76	0	50	0	50	1.00
31802076--31802176	14	7.1	14	70	13	55	33	18	0	46	1.56
31802104--31802170	7	9.6	7	76	12	66	32	13	1	52	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31802077--31802177	21	4.8	20	76	11	87	32	18	0	47	1.56
31803812--31803839	2	14.0	2	100	0	56	50	0	0	50	1.00
31804934--31804967	2	17.0	2	100	0	68	50	0	0	50	1.00
31805784--31805894	19	5.8	19	86	0	159	40	9	11	38	1.73
31805791--31805894	38	2.7	38	93	0	181	41	8	10	39	1.70
31805784--31805920	19	6.9	21	82	10	107	39	8	13	39	1.74
31807582--31807725	41	3.5	41	88	0	207	30	21	22	25	1.99
31820679--31820725	17	2.5	19	76	13	53	29	4	6	59	1.41
31829715--31829978	27	9.8	27	81	5	261	43	20	16	20	1.88
31829714--31829977	81	3.3	79	84	4	323	43	20	16	20	1.88
31831344--31831731	27	14.4	27	83	0	407	43	20	17	19	1.89
31832462--31832508	24	1.9	24	86	4	67	36	0	38	25	1.56
31833211--31833397	27	7.0	27	84	1	232	41	21	18	18	1.90
31835669--31835698	15	2.0	15	93	0	51	63	6	23	6	1.43
31836659--31836690	9	3.6	9	95	0	55	34	0	0	65	0.93
31836672--31836764	33	2.9	32	77	3	96	46	2	2	49	1.26
31836671--31836789	32	3.7	32	74	12	91	48	1	2	47	1.25
31848665--31848777	45	2.5	45	82	1	120	38	28	15	18	1.91
31848702--31848866	45	3.7	45	80	3	161	37	23	14	24	1.92
31861419--31861558	75	1.9	74	82	7	176	36	23	18	21	1.95
31861781--31861830	24	2.1	24	88	0	73	40	12	14	34	1.82
31861978--31862022	21	2.1	22	88	12	67	40	4	20	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31862308--31862375	33	2.0	36	85	8	97	27	26	20	25	1.99
31862775--31862914	26	5.3	27	85	6	157	24	17	20	37	1.94
31862803--31862915	26	4.3	26	91	0	181	23	17	21	37	1.94
31862775--31862914	52	2.7	52	88	5	194	24	17	20	37	1.94
31870267--31870355	26	3.4	27	81	7	112	20	12	26	40	1.88
31870253--31870406	52	2.9	52	80	6	152	21	18	21	38	1.93
31872682--31872735	27	2.0	27	100	0	108	40	18	3	37	1.69
31872685--31872751	27	2.5	27	85	4	64	44	20	2	31	1.67
31872975--31873009	17	2.1	17	88	0	52	14	14	0	71	1.15
31883903--31883984	35	2.4	34	79	6	85	46	17	7	29	1.74
31890452--31890606	83	1.9	83	82	2	195	42	16	18	22	1.89
31911684--31911762	41	1.9	41	85	10	108	46	15	12	25	1.80
31913012--31913138	55	2.3	55	81	4	150	20	25	26	26	1.99
31917395--31917470	20	3.8	20	79	10	91	50	6	13	30	1.67
31921636--31921680	21	2.1	21	95	0	81	51	4	28	15	1.63
31922653--31922694	22	1.9	22	90	0	66	71	9	7	11	1.31
31924877--31924910	2	17.0	2	100	0	68	50	0	50	0	1.00
31927943--31927995	26	2.0	26	100	0	106	18	15	22	43	1.87
31932068--31932150	27	3.1	27	61	19	66	38	12	7	42	1.70
31932068--31932179	52	2.1	52	98	1	215	37	11	5	45	1.63
31932723--31932756	12	2.8	12	100	0	68	58	17	0	23	1.38
31933770--31933812	13	3.1	14	84	12	54	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31943563--31943597	2	17.5	2	100	0	70	0	0	51	48	1.00
31949239--31949272	15	2.2	16	89	5	52	64	0	8	26	1.22
31950260--31950310	24	2.2	23	89	3	75	56	0	0	43	0.99
31950399--31950437	21	1.9	20	89	5	60	51	2	0	46	1.14
31950715--31950755	16	2.7	15	88	3	55	34	0	2	63	1.08
31950732--31950784	20	2.7	19	82	5	61	32	0	3	64	1.12
31955518--31955562	19	2.4	18	82	10	56	28	4	2	64	1.25
31956844--31956888	22	2.1	21	83	4	54	11	13	2	73	1.19
31957130--31957180	10	5.0	10	75	13	50	80	1	9	7	0.98
31960272--31960309	18	2.1	18	95	0	67	28	36	0	34	1.58
31960348--31960383	16	2.2	16	95	0	63	25	5	2	66	1.27
31971355--31971393	19	2.1	19	95	0	69	33	5	17	43	1.72
31978996--31979074	26	3.2	26	78	12	76	35	21	26	16	1.94
31979025--31979102	26	3.1	25	79	5	77	33	20	23	23	1.97
31989531--31989564	16	2.1	16	88	0	50	44	2	0	52	1.16
31991844--31991877	10	3.3	10	88	8	50	55	0	0	44	0.99
32016688--32016747	3	20.3	3	90	10	97	66	0	0	33	0.92
32018238--32018863	50	12.5	50	67	6	343	21	26	23	28	1.99
32018195--32018863	100	6.7	100	91	0	1061	21	26	23	28	1.99
32020224--32020277	15	3.6	15	73	16	58	16	16	0	66	1.25
32020769--32020841	24	3.0	24	80	11	85	1	5	8	84	0.81
32020767--32020842	10	7.8	10	73	7	59	1	6	7	84	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32020767--32020841	1	75.0	1	70	0	51	1	5	8	85	0.80
32023461--32023495	16	2.2	16	89	0	52	48	20	14	17	1.81
32024851--32024883	2	16.5	2	100	0	66	51	0	0	48	1.00
32025007--32025037	13	2.3	14	94	5	55	61	0	0	38	0.96
32025087--32025132	18	2.5	19	76	16	51	60	4	6	28	1.40
32025343--32025412	3	23.3	3	94	5	124	65	0	0	34	0.93
32027238--32027281	21	2.1	21	100	0	88	38	9	13	38	1.77
32027237--32027292	21	2.8	19	87	10	85	37	8	16	37	1.80
32027250--32027315	23	3.0	23	82	12	77	37	6	16	39	1.74
32027281--32027325	23	2.0	23	86	4	65	33	4	15	46	1.66

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