genome.fa.s13.2.7.7.80.10.50.1000.147.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  147  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)
44195317--44195459	71	2.0	71	87	2	207	35	24	22	17	1.95
44200226--44200264	8	4.8	8	81	6	51	7	12	20	58	1.58
44200213--44200264	25	2.1	25	96	0	95	7	13	19	59	1.58
44202535--44202586	15	3.5	15	78	0	50	46	5	1	46	1.38
44209715--44209848	66	2.0	66	80	5	146	14	23	17	44	1.85
44212555--44212637	24	3.4	24	79	14	107	48	8	13	30	1.72
44212551--44212620	12	5.8	12	79	14	81	47	8	12	31	1.72
44213596--44213982	191	2.0	193	93	3	665	31	19	13	35	1.91
44217781--44217827	23	2.0	23	100	0	94	29	17	19	34	1.94
44218959--44219040	6	13.7	6	82	5	58	10	9	10	68	1.40
44218984--44219048	30	2.2	30	88	0	94	7	6	12	73	1.23
44227260--44227394	59	2.3	59	93	0	225	45	2	5	45	1.39
44230994--44231087	41	2.3	41	81	1	109	25	13	21	39	1.90
44237459--44237490	13	2.6	13	90	9	50	68	9	3	18	1.30
44237454--44237490	11	3.2	12	85	14	51	67	8	2	21	1.29
44249405--44249439	15	2.4	15	95	4	63	0	25	0	74	0.82
44261890--44261938	16	3.1	16	96	0	89	38	6	34	20	1.77
44262152--44262193	15	2.7	16	82	14	52	52	2	0	45	1.13
44262161--44262202	15	2.9	15	82	10	52	52	0	0	47	1.00
44262187--44262507	61	5.3	60	68	18	229	49	6	2	42	1.41
44262150--44262546	120	3.3	120	94	1	690	49	5	2	42	1.36
44262387--44262433	16	3.0	16	78	12	53	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44262190--44262493	59	5.1	57	64	25	164	49	6	2	42	1.41
44267214--44267365	49	3.0	49	80	5	171	36	24	13	25	1.92
44268658--44268716	30	1.9	31	86	3	84	50	6	20	22	1.71
44268981--44269009	8	3.6	8	100	0	58	24	0	0	75	0.80
44270151--44270192	2	21.0	2	100	0	84	50	0	0	50	1.00
44275598--44275673	39	1.9	40	84	7	102	23	21	25	30	1.99
44287318--44287361	21	2.2	20	83	4	52	47	29	4	18	1.68
44287353--44287397	16	2.8	16	83	9	56	60	4	0	35	1.17
44287366--44287397	16	1.9	17	93	6	57	62	0	0	37	0.95
44310151--44310254	49	2.1	49	89	0	154	32	4	10	51	1.57
44311614--44311656	21	2.0	21	86	8	61	34	0	6	58	1.25
44311673--44311808	26	5.1	27	71	17	90	42	0	2	54	1.15
44311678--44311837	80	2.0	79	95	1	284	42	0	3	53	1.18
44311850--44312047	26	7.0	29	71	17	116	42	0	3	53	1.20
44311730--44312036	112	2.7	114	88	8	457	42	0	3	53	1.23
44314515--44314549	6	6.0	6	86	6	54	37	0	0	62	0.95
44314853--44314887	15	2.3	15	90	0	52	14	0	28	57	1.38
44314878--44314951	21	3.5	21	64	0	58	25	2	25	45	1.66
44315025--44315090	34	1.9	34	90	0	105	40	0	13	45	1.44
44315326--44315696	120	3.0	120	72	9	381	36	18	18	27	1.93
44315203--44315692	246	2.0	245	88	0	737	36	17	18	28	1.93
44319148--44319420	139	2.0	139	89	1	422	45	13	25	16	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44319698--44319803	11	10.4	11	71	23	56	59	0	3	36	1.16
44319721--44319781	9	6.4	9	78	10	50	67	0	1	31	1.01
44319673--44319820	39	3.7	40	89	8	230	62	0	2	34	1.09
44319710--44319822	27	4.3	27	67	17	83	63	0	2	33	1.08
44319674--44319820	79	1.9	80	92	1	251	63	0	2	34	1.09
44330198--44330311	4	28.5	4	100	0	228	25	0	24	50	1.50
44330301--44330341	20	2.0	20	90	0	64	43	7	9	39	1.65
44330489--44330602	9	13.4	8	81	13	90	61	0	5	32	1.24
44330511--44330603	3	30.7	3	89	6	143	64	0	3	32	1.09
44330502--44330532	15	2.1	15	93	0	53	54	3	12	29	1.53
44331755--44332521	44	17.5	44	69	11	305	27	21	19	31	1.97
44331679--44332395	44	16.3	45	67	14	284	28	21	19	30	1.97
44331884--44332175	129	2.3	129	91	0	467	29	21	18	30	1.97
44331775--44332354	306	1.9	304	93	1	1000	28	21	18	31	1.97
44332013--44332521	175	2.9	176	91	1	806	27	21	18	31	1.97
44332567--44332725	50	3.2	50	74	1	167	24	20	22	32	1.98
44332542--44332756	100	2.1	100	87	2	315	25	20	23	30	1.99
44332590--44332756	50	3.3	50	74	0	172	24	22	23	28	1.99
44333978--44334010	13	2.5	14	85	14	52	15	12	0	72	1.12
44333978--44334010	7	5.0	7	89	10	52	15	12	0	72	1.12
44334871--44334929	25	2.2	27	79	8	68	8	5	6	79	1.04
44335480--44335505	10	2.6	10	100	0	52	0	7	7	84	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44342352--44342418	3	21.7	3	82	17	84	64	0	1	34	1.03
44342363--44342418	14	3.9	14	84	15	78	64	0	0	35	0.94
44342329--44342418	33	2.7	33	78	14	96	60	1	4	34	1.24
44343744--44343811	26	2.6	26	93	4	111	45	10	0	44	1.38
44343852--44343930	27	2.9	27	88	0	113	29	21	31	17	1.96
44344547--44344642	19	5.2	19	83	5	133	48	0	14	36	1.44
44344547--44344642	37	2.6	37	98	0	183	48	0	14	36	1.44
44344946--44345031	27	3.2	27	89	0	127	16	30	25	27	1.97
44345069--44345123	28	2.0	28	89	3	85	32	0	10	56	1.34
44347704--44347728	12	2.1	12	100	0	50	44	16	24	16	1.86
44347402--44348021	314	2.0	313	97	0	1177	33	20	14	31	1.93
44349792--44349863	33	2.2	33	78	9	76	52	2	12	31	1.53
44352219--44352430	111	1.9	112	89	3	331	25	15	20	39	1.91
44352410--44352690	110	2.9	94	81	14	293	37	18	12	31	1.89
44352486--44352740	110	2.4	108	88	7	369	32	20	14	33	1.92
44353910--44353958	22	2.2	21	80	16	55	22	24	0	53	1.47
44355639--44355711	30	2.4	30	77	4	76	28	39	17	13	1.88
44356252--44356470	49	4.5	49	95	0	384	43	2	8	45	1.49
44356294--44356377	29	3.2	29	62	28	78	42	2	9	45	1.49
44359668--44360078	124	3.3	124	87	1	583	30	20	16	32	1.95
44360248--44360290	22	2.0	22	90	4	70	48	34	0	16	1.46
44360764--44360856	2	50.0	2	82	18	121	53	0	1	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44363651--44363807	75	2.0	75	84	9	201	46	11	5	36	1.64
44363747--44363779	15	2.2	15	94	0	57	42	3	15	39	1.62
44363818--44363855	13	2.9	13	88	7	51	57	5	2	34	1.35
44365034--44365160	38	3.1	42	83	6	129	58	22	4	14	1.55
44365060--44365160	38	2.7	36	89	4	139	56	22	4	15	1.59
44365103--44365178	18	4.1	18	74	12	82	56	19	5	18	1.60
44365103--44365216	56	2.0	56	98	0	219	55	21	6	17	1.63
44365159--44365335	38	5.0	38	71	17	150	53	23	7	15	1.68
44365291--44365348	29	2.0	30	93	3	100	56	22	6	13	1.61
44365639--44365682	20	2.1	21	83	4	54	61	2	0	36	1.09
44367207--44367285	12	7.0	11	90	7	63	32	3	0	63	1.12
44367203--44367275	3	24.3	3	94	0	128	32	2	0	64	1.08
44367725--44368264	110	5.0	108	87	5	757	31	16	18	34	1.93
44367725--44368241	218	2.4	215	89	3	802	30	15	18	34	1.93
44374138--44374182	23	1.9	24	86	4	65	42	22	0	35	1.54
44375063--44375104	15	2.5	16	81	18	50	50	4	0	45	1.23
44376386--44376410	5	5.0	5	100	0	50	20	0	0	80	0.72
44380579--44380626	23	2.1	23	85	14	64	8	14	2	75	1.13
44381729--44381771	17	2.5	17	96	0	77	32	6	13	46	1.71
44382320--44382384	32	2.1	32	97	2	123	30	9	12	47	1.72
44382685--44382716	3	10.7	3	100	0	64	31	0	0	68	0.90
44382937--44382965	12	2.3	13	94	5	51	68	20	10	0	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44388990--44389042	3	17.7	3	100	0	106	32	0	0	67	0.91
44395013--44395057	22	2.0	23	84	16	60	44	8	2	44	1.47
44403455--44403569	52	2.3	50	77	6	115	38	3	16	41	1.65
44412802--44412855	5	11.4	5	77	18	62	44	0	0	55	0.99
44412807--44412855	19	2.5	20	90	6	82	44	0	0	55	0.99
44412802--44412846	24	1.9	23	90	4	72	44	0	0	55	0.99
44413042--44413089	22	2.2	22	82	14	55	70	8	20	0	1.12
44413445--44413489	23	1.9	24	86	13	67	55	2	22	20	1.54
44416108--44416204	23	4.2	23	85	5	124	34	26	16	22	1.95
44418872--44418925	24	2.2	24	83	0	63	38	18	14	27	1.90

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