genome.fa.s13.2.7.7.80.10.50.1000.150.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  150  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)
44939329--44939528	111	1.8	111	87	2	303	23	17	32	27	1.96
44943671--44943716	22	2.1	21	84	4	56	56	2	2	39	1.24
44948555--44948599	18	2.5	19	82	7	58	31	0	6	62	1.21
44966764--44966879	58	2.0	58	98	0	223	16	25	5	53	1.63
44972180--44972301	59	2.0	60	95	1	219	17	23	4	54	1.59
44972395--44972509	19	5.7	21	81	11	62	41	17	5	35	1.72
44972431--44972522	19	4.8	19	91	0	148	38	17	7	36	1.78
44972424--44972522	38	2.7	38	93	3	166	37	18	7	37	1.78
44973786--44973813	13	2.2	13	100	0	56	46	14	0	39	1.44
44982273--44982300	5	5.6	5	100	0	56	82	0	0	17	0.68
44994168--44994252	12	7.0	11	75	18	64	27	18	10	43	1.83
44994171--44994234	13	5.0	13	78	14	71	23	20	10	45	1.82
44998451--44998488	16	2.3	17	86	4	51	15	0	2	81	0.80
44998698--44998775	5	15.0	5	79	12	70	73	0	2	24	0.96
44998697--44998774	6	13.7	6	78	15	51	74	0	2	23	0.94
44998698--44998775	16	4.7	16	75	17	70	73	0	2	24	0.96
45009404--45009445	7	6.0	7	94	0	75	40	0	30	28	1.57
45010656--45010708	22	2.4	22	84	6	72	32	0	0	67	0.91
45010938--45010970	16	2.0	17	94	5	59	69	0	0	30	0.88
45011129--45011176	24	1.9	24	83	8	60	31	2	4	62	1.26
45013760--45013802	18	2.4	18	80	0	50	27	6	32	32	1.84
45023096--45023124	14	2.0	15	93	6	51	31	0	6	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45028804--45028864	10	5.6	11	75	21	58	22	34	0	42	1.54
45028821--45028876	22	2.5	22	94	2	94	30	30	0	39	1.57
45030711--45030745	18	1.9	18	94	0	61	25	31	8	34	1.86
45031170--45031255	44	1.9	45	90	2	138	38	0	12	48	1.41
45031281--45031541	29	9.3	29	66	27	127	47	24	0	27	1.52
45031302--45031596	50	6.1	49	79	11	315	46	23	0	29	1.52
45031475--45031514	21	1.9	21	100	0	80	52	22	0	25	1.47
45031533--45031624	29	3.0	32	89	7	138	44	26	0	29	1.54
45031352--45031702	78	4.7	74	74	18	279	46	23	0	29	1.55
45031395--45031865	128	3.8	127	80	13	534	46	23	0	29	1.56
45031574--45031865	50	5.8	49	77	17	314	46	23	0	29	1.57
45031605--45031644	21	2.0	21	95	5	73	47	27	0	25	1.52
45031301--45031865	203	2.8	199	83	12	639	46	23	0	29	1.55
45031261--45031846	23	23.7	23	69	24	303	46	24	0	28	1.56
45031742--45031822	29	2.8	29	96	0	144	45	22	1	30	1.60
45033470--45033815	126	2.8	123	87	4	489	32	21	15	30	1.95
45033996--45034084	42	2.2	42	81	4	101	22	30	23	23	1.99
45034634--45034720	37	2.3	36	80	9	95	39	2	3	55	1.30
45036761--45036800	20	2.0	20	90	0	62	50	10	10	30	1.69
45051846--45051898	23	2.5	20	82	17	54	39	3	3	52	1.37
45051869--45051932	3	21.3	3	78	0	65	37	1	3	57	1.24
45052054--45052101	18	2.7	17	81	9	51	33	0	4	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45052469--45052507	17	2.4	16	79	8	51	20	7	0	71	1.10
45054636--45054679	2	22.0	2	95	0	79	50	0	2	47	1.13
45058290--45058354	28	2.2	30	81	13	82	49	3	1	46	1.27
45063966--45064047	41	2.0	41	97	0	155	26	15	14	42	1.86
45064136--45064210	39	1.9	39	81	10	91	44	2	2	50	1.30
45066901--45066930	15	2.0	15	93	0	51	43	3	20	33	1.68
45070378--45070403	5	5.2	5	100	0	52	80	0	19	0	0.71
45071366--45071422	24	2.3	24	75	24	57	35	15	15	33	1.90
45074849--45074881	15	2.3	15	89	5	50	33	0	27	39	1.57
45079642--45079723	25	3.3	25	77	16	89	29	19	24	26	1.98
45087073--45087101	12	2.3	13	94	5	51	6	17	3	72	1.21
45092143--45092542	67	6.0	67	81	5	425	35	16	24	24	1.95
45092143--45092525	200	1.9	200	82	5	488	35	16	24	23	1.95
45092533--45092631	27	3.7	26	82	2	90	28	14	29	28	1.95
45092582--45092634	27	2.0	27	96	0	97	24	15	35	24	1.94
45092587--45092642	27	2.1	27	86	0	76	28	19	32	19	1.97
45092587--45092649	27	2.3	27	83	0	63	33	17	28	20	1.95
45095773--45095812	15	2.5	17	80	19	50	52	0	32	15	1.43
45100404--45100463	3	20.0	3	96	0	111	31	0	1	66	1.01
45103647--45103727	40	2.0	40	97	0	153	22	12	18	46	1.82
45104180--45104240	15	4.1	15	78	0	59	29	11	3	55	1.51
45109814--45109870	28	2.0	28	96	0	105	22	10	29	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45110651--45110700	17	3.0	17	91	2	84	0	14	6	80	0.90
45112521--45112609	44	2.0	43	89	2	133	50	3	8	37	1.51
45115039--45115652	305	2.0	305	99	0	1210	22	14	24	37	1.92
45119953--45119981	9	3.2	9	100	0	58	0	20	0	79	0.74
45121663--45121694	2	16.0	2	100	0	64	50	0	0	50	1.00
45122185--45122241	21	2.7	22	86	8	82	29	8	33	28	1.87
45125229--45125266	6	6.2	6	87	6	58	39	0	60	0	0.97
45125229--45125264	18	2.0	18	100	0	72	38	0	61	0	0.96
45125234--45125274	18	2.3	18	86	0	55	41	0	58	0	0.98
45135641--45135695	19	2.9	19	76	13	60	54	3	5	36	1.41
45159833--45159871	18	2.2	18	85	0	51	71	5	10	12	1.28
45163563--45163611	22	2.2	22	85	7	64	20	34	24	20	1.96
45165105--45165227	64	1.9	64	83	0	156	21	20	21	36	1.95
45168586--45168618	17	2.0	16	94	5	57	18	0	6	75	1.00
45176901--45176940	21	1.9	21	85	10	55	42	2	0	55	1.13
45179941--45179973	16	2.0	17	88	5	50	54	0	0	45	0.99
45186344--45186437	39	2.4	39	82	5	109	29	28	24	17	1.97
45188925--45189001	39	2.0	40	82	12	97	32	23	3	40	1.73
45189779--45189833	19	3.0	19	81	5	51	45	3	0	50	1.19
45189902--45189942	20	2.0	21	85	4	57	41	0	0	58	0.98
45196082--45196153	22	3.3	22	76	0	72	40	15	26	18	1.90
45199957--45200017	30	2.0	31	87	3	88	36	1	44	18	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45200066--45200102	9	4.1	9	85	0	56	27	10	13	48	1.75
45201116--45201163	20	2.4	19	83	10	60	20	0	2	77	0.88
45201099--45201163	24	2.8	24	73	19	64	21	1	1	75	0.97
45201103--45201163	16	3.8	17	80	8	56	19	1	1	77	0.95
45202179--45202238	5	12.2	5	81	13	54	75	0	5	20	0.99
45202164--45202248	36	2.4	35	76	18	95	72	0	4	22	1.02
45202172--45202245	4	17.5	4	79	18	55	74	0	4	21	0.98
45208709--45208744	15	2.5	14	86	8	54	44	8	0	47	1.33
45212862--45212903	19	2.3	18	87	4	57	14	2	7	76	1.10
45228075--45228121	2	23.5	2	95	0	85	48	0	0	51	1.00
45229369--45229411	2	21.5	2	100	0	86	48	0	0	51	1.00
45236049--45236078	7	4.3	7	100	0	60	16	43	0	40	1.48
45246698--45246744	22	2.1	22	100	0	94	25	29	10	34	1.90
45253494--45253556	13	4.9	13	71	11	58	36	20	6	36	1.78
45255491--45255525	2	17.5	2	100	0	70	0	48	0	51	1.00
45255599--45255635	16	2.4	16	86	8	51	35	2	8	54	1.44
45257397--45257523	9	14.1	9	83	3	139	14	6	40	38	1.71
45260251--45260285	17	2.1	17	94	0	61	40	17	8	34	1.80
45266696--45266755	30	2.0	31	93	3	104	40	13	5	41	1.66
45268711--45268758	19	2.5	19	89	0	78	27	6	31	35	1.82
45271579--45271608	13	2.3	13	100	0	60	23	40	6	30	1.80
45273912--45273963	25	2.1	25	92	0	86	44	1	26	26	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45274817--45274932	17	6.9	17	79	2	126	21	10	25	43	1.84
45274836--45274932	33	2.9	34	77	9	99	22	10	24	42	1.85
45274815--45274932	50	2.3	51	82	1	139	22	10	24	43	1.84
45276853--45276997	38	3.8	38	83	0	191	37	19	14	28	1.91
45276853--45276997	76	1.9	76	89	0	227	37	19	14	28	1.91
45278794--45278842	3	16.0	3	95	4	89	32	2	0	65	1.04
45278981--45279014	4	9.0	4	87	12	54	52	0	0	47	1.00
45279317--45279383	9	7.2	9	80	12	82	22	8	29	38	1.85
45279315--45279383	29	2.4	29	86	9	90	21	8	28	40	1.83
45286157--45287024	114	7.7	113	87	4	1245	34	21	20	24	1.97

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