genome.fa.s13.2.7.7.80.10.50.1000.192.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  192  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)
55902786--55902825	21	1.9	21	89	0	62	27	2	0	70	1.01
55902807--55902859	12	4.4	12	78	0	52	35	5	0	58	1.22
55906587--55906665	28	2.9	28	76	1	79	36	29	8	25	1.86
55907355--55907459	37	2.9	36	85	10	128	43	10	9	36	1.72
55907425--55907479	20	2.7	20	83	10	67	32	14	14	38	1.87
55907425--55907472	21	2.3	21	86	10	64	31	12	12	43	1.80
55907394--55907513	58	2.1	57	83	7	145	42	12	10	35	1.76
55907482--55907522	22	2.0	20	85	9	55	46	7	4	41	1.53
55907549--55907852	18	16.8	18	69	13	171	43	9	14	32	1.78
55907549--55907821	36	7.7	35	77	9	232	42	9	14	32	1.78
55907746--55907850	37	2.8	37	85	8	131	40	10	11	37	1.76
55907549--55907852	17	16.8	17	68	15	157	43	9	14	32	1.78
55907746--55907860	39	3.1	36	82	8	142	38	9	11	40	1.74
55908564--55908620	4	13.8	4	75	14	53	1	28	0	70	0.98
55908583--55908620	19	2.0	19	89	0	58	2	21	0	76	0.91
55908724--55908785	28	2.2	28	79	0	70	1	19	4	74	1.09
55909151--55909303	30	5.2	29	74	15	98	39	5	20	34	1.75
55909160--55909273	59	2.0	57	79	10	124	40	5	21	33	1.75
55909235--55909303	30	2.3	30	92	5	113	39	4	17	39	1.69
55911411--55911522	55	2.0	56	91	1	181	43	8	8	38	1.67
55913611--55913660	17	2.9	16	80	11	55	38	20	12	30	1.88
55913613--55913659	18	2.7	17	80	9	51	40	21	12	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55914279--55914310	11	2.8	12	86	13	50	12	6	0	81	0.87
55919290--55919328	8	5.0	8	87	6	53	84	5	0	10	0.76
55919291--55919340	23	2.1	23	88	3	73	78	10	0	12	0.98
55921557--55921695	43	3.2	42	64	12	102	26	21	24	27	1.99
55921600--55921900	44	6.9	44	68	13	138	27	24	24	23	2.00
55921577--55921922	88	4.0	88	89	3	454	26	23	25	24	2.00
55921719--55921856	43	3.2	43	68	15	120	27	23	25	23	2.00
55921947--55922381	44	9.8	44	71	16	211	31	17	21	28	1.96
55922127--55922441	140	2.2	140	85	6	431	32	16	21	29	1.95
55923837--55923897	3	20.3	3	100	0	122	32	0	0	67	0.91
55924487--55924705	110	2.0	112	90	3	354	32	14	17	35	1.90
55924507--55924730	110	2.1	108	86	4	290	30	14	18	36	1.90
55929357--55929390	17	2.0	17	88	0	50	32	8	11	47	1.71
55932629--55932683	3	18.7	3	82	17	71	34	0	1	63	1.05
55936564--55936593	12	2.6	12	94	5	53	66	16	0	16	1.25
55937538--55937565	5	5.6	5	100	0	56	42	17	17	21	1.89
55938595--55938631	9	4.1	9	85	0	56	29	8	13	48	1.71
55941324--55941361	17	2.2	17	86	9	51	60	0	7	31	1.25
55941504--55941552	3	16.3	3	91	0	80	63	0	4	32	1.13
55941504--55941562	15	4.0	15	91	2	66	59	1	6	32	1.34
55943063--55943252	44	4.3	44	85	1	254	29	23	14	32	1.94
55943248--55943859	132	4.6	132	94	1	1023	28	24	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55943373--55943759	88	4.4	88	67	13	222	27	24	18	29	1.98
55943896--55944036	45	3.2	45	66	17	132	24	19	21	34	1.97
55943904--55944072	87	1.9	87	96	0	311	23	21	24	30	1.99
55950086--55950123	17	2.2	17	86	9	51	60	0	7	31	1.25
55950262--55950313	3	17.3	3	95	0	95	65	0	1	32	1.04
55951448--55951478	16	1.9	16	93	0	53	51	9	3	35	1.51
55951494--55951562	27	2.4	29	77	18	81	62	4	2	30	1.29
55951497--55951562	31	2.2	31	83	8	82	63	4	3	28	1.29
55953618--55953861	50	4.7	50	83	3	281	21	28	23	26	1.99
55953617--55953854	100	2.3	105	86	5	324	21	29	22	26	1.99
55953961--55953991	13	2.4	13	94	0	53	54	12	0	32	1.38
55954204--55954261	30	1.9	30	89	0	89	31	24	3	41	1.71
55955890--55956050	43	3.8	43	79	6	159	32	22	16	29	1.95
55957206--55957254	26	1.9	26	88	12	75	57	10	18	14	1.65
55970065--55970113	25	2.0	25	95	0	89	26	2	8	63	1.34
55970067--55970123	25	2.3	25	87	0	78	26	3	5	64	1.30
55970162--55970264	3	35.0	3	75	11	88	35	0	2	60	1.18
55970252--55970302	23	2.1	23	85	7	66	33	7	3	54	1.47
55970361--55970465	47	2.3	47	80	9	128	40	13	1	44	1.54
55970549--55970575	4	6.8	4	100	0	54	22	0	0	77	0.76
55972799--55972828	6	5.0	6	91	0	51	33	46	0	20	1.51
55977736--55977761	13	2.0	13	100	0	52	53	0	46	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55977740--55977782	13	3.4	13	87	3	52	69	0	30	0	0.88
55977762--55977801	16	2.5	16	88	8	55	82	2	12	2	0.87
55977927--55977980	24	2.4	23	84	9	67	24	40	31	3	1.72
55978023--55978072	11	4.7	10	76	13	55	80	0	20	0	0.72
55978023--55978073	22	2.4	22	77	9	61	78	0	21	0	0.75
55978596--55978887	19	15.6	19	73	16	123	35	13	9	42	1.76
55978585--55978835	39	6.7	38	85	5	298	35	13	9	41	1.77
55978581--55978904	18	17.5	18	71	13	162	34	13	9	42	1.76
55986218--55986543	46	7.6	45	80	14	368	34	14	22	28	1.93
55986254--55986408	36	4.0	36	78	15	166	37	12	20	29	1.90
55986218--55986543	82	3.9	82	84	8	433	34	14	22	28	1.93
55986218--55986543	128	2.6	126	76	10	383	34	14	22	28	1.93
55988607--55988912	80	3.8	81	86	5	372	29	17	19	33	1.95
55989123--55989219	30	3.2	30	88	0	140	36	20	3	40	1.68
55989123--55989260	60	2.3	60	83	5	163	31	21	4	42	1.73
55989123--55989270	30	4.9	30	74	6	120	32	20	4	42	1.71
55989618--55989673	3	18.7	3	96	0	103	69	0	30	0	0.89
55990478--55990727	39	6.7	38	78	9	203	36	12	8	42	1.73
55990495--55990674	19	9.4	20	68	16	89	36	12	7	42	1.72
55990597--55990726	18	7.3	18	74	10	124	35	13	7	43	1.72
55990567--55990726	35	4.4	35	80	11	162	33	13	8	45	1.72
55990493--55990736	38	6.6	36	75	13	133	35	12	7	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55990515--55990727	18	11.6	18	66	17	98	35	13	7	43	1.73
55991148--55991300	26	5.7	26	72	6	108	60	3	6	29	1.40
55996654--55996704	23	2.2	23	80	13	61	39	0	1	58	1.09
55998561--55998665	29	3.6	29	79	5	113	32	18	3	45	1.67
55998929--55998988	21	3.1	20	77	13	63	63	0	36	0	0.95
55998930--55998985	20	2.7	21	80	5	69	66	0	33	0	0.92
55998941--55998990	18	2.6	19	79	17	59	60	0	40	0	0.97
55999365--55999407	10	4.0	10	80	16	50	81	0	18	0	0.69
55999360--55999403	18	2.4	18	88	7	63	81	0	18	0	0.68
55999364--55999407	23	2.0	21	91	8	70	81	0	18	0	0.68
55999549--55999589	17	2.3	18	83	8	57	29	0	0	70	0.87
55999543--55999601	25	2.1	30	82	14	74	28	0	1	69	0.98
55999720--55999822	38	2.7	38	76	10	102	35	10	11	41	1.76
55999723--55999824	18	5.4	18	68	16	55	37	9	11	41	1.75
55999930--56000172	17	13.9	18	81	7	252	30	11	11	46	1.75
55999930--56000161	35	6.6	35	82	8	267	31	11	11	45	1.76
56003143--56003188	23	2.0	23	95	0	83	54	13	2	30	1.50
56003426--56003467	20	2.2	20	82	4	50	7	19	19	54	1.66
56007209--56007235	2	13.5	2	100	0	54	51	0	0	48	1.00
56010223--56010262	22	2.0	20	85	14	55	50	22	0	27	1.50
56013568--56013649	36	2.2	37	78	6	96	26	0	3	69	1.05
56018989--56019041	6	9.0	6	89	2	81	1	18	32	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56019649--56019706	30	1.9	30	89	0	89	50	10	10	29	1.70
56020721--56020880	27	5.8	27	85	4	158	0	16	33	49	1.46
56020710--56020877	12	14.0	12	87	0	183	0	17	34	48	1.47
56020732--56020883	6	25.3	6	84	0	97	0	15	33	51	1.43
56020921--56020984	12	5.1	12	78	10	56	4	17	35	42	1.70
56022940--56022984	1	45.0	1	81	0	54	0	8	0	91	0.43
56022939--56022984	15	3.0	15	90	3	74	0	10	0	89	0.50
56026667--56026789	31	4.0	31	78	6	101	38	17	10	34	1.84
56033574--56033612	18	2.2	18	95	0	69	51	0	2	46	1.14
56036776--56036808	17	1.9	17	93	0	57	60	0	6	33	1.21

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