genome.fa.s13.2.7.7.80.10.50.1000.163.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  163  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)
48058985--48059162	43	4.2	43	86	3	252	21	24	27	26	1.99
48058985--48059162	85	2.1	86	91	3	288	21	24	27	26	1.99
48059945--48060018	38	1.9	39	83	2	96	40	1	1	56	1.16
48060556--48060788	95	2.4	93	79	9	229	40	18	8	32	1.80
48060816--48060870	19	2.8	19	78	8	58	56	0	1	41	1.10
48061219--48061298	10	8.5	10	75	9	71	30	2	0	67	1.04
48061210--48061291	19	4.3	20	72	17	75	34	2	0	63	1.08
48061246--48061305	19	3.1	20	78	4	61	28	3	1	66	1.17
48061216--48061309	27	3.4	26	80	11	107	32	3	1	62	1.18
48062810--48062861	3	18.0	3	77	15	56	63	3	0	32	1.12
48062810--48062894	11	7.8	11	73	20	63	64	4	0	30	1.14
48062810--48062868	14	4.3	13	85	14	75	64	3	0	32	1.10
48064328--48064528	100	2.0	99	85	0	267	25	21	21	31	1.98
48064763--48064901	44	3.2	44	68	6	129	29	25	20	24	1.99
48064689--48064950	88	3.0	89	87	2	359	28	26	18	26	1.98
48069029--48069075	19	2.5	20	82	6	62	42	10	19	27	1.84
48069530--48069564	16	2.2	16	89	0	52	42	20	14	22	1.88
48071412--48071452	3	14.0	3	80	14	50	63	2	0	34	1.08
48071417--48071487	22	3.2	21	84	7	88	66	4	0	29	1.11
48076275--48076384	45	2.6	43	79	11	120	32	28	5	33	1.80
48076363--48076416	16	3.4	16	94	0	90	33	35	0	31	1.58
48078323--48078517	98	2.0	98	93	0	336	36	25	10	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48079694--48079742	22	2.2	22	85	7	64	36	18	6	38	1.76
48079721--48079814	19	4.8	19	87	5	143	37	15	9	37	1.81
48079721--48079814	38	2.4	39	94	3	163	37	15	9	37	1.81
48080038--48080411	44	8.7	44	75	10	233	27	22	21	28	1.99
48080038--48080324	128	2.2	128	93	0	493	28	20	21	29	1.98
48079990--48080413	44	9.8	44	72	14	224	27	22	20	28	1.99
48080038--48080408	128	2.9	128	85	5	453	27	22	21	28	1.99
48080413--48080902	131	3.8	132	89	4	762	29	24	17	28	1.98
48080413--48080902	258	1.9	261	89	3	765	29	24	17	28	1.98
48080482--48080997	258	2.0	255	83	5	637	27	23	19	29	1.98
48082271--48082351	1	81.0	1	77	0	81	2	0	8	88	0.59
48082279--48082350	8	8.9	8	83	13	94	1	0	9	88	0.56
48082271--48082351	9	9.7	9	88	8	102	2	0	8	88	0.59
48088107--48088301	98	2.0	98	94	0	345	36	25	11	26	1.90
48089490--48089617	19	6.3	21	81	9	83	38	16	7	37	1.78
48089490--48089539	22	2.3	22	86	6	66	38	18	6	38	1.75
48089511--48089648	59	2.4	58	88	7	201	35	16	10	37	1.83
48089518--48089649	19	6.8	19	88	3	201	35	16	10	37	1.84
48093243--48093342	3	33.0	3	68	15	55	34	5	3	58	1.35
48093226--48093293	31	2.4	31	83	11	83	32	7	2	57	1.41
48093243--48093308	20	3.2	20	79	16	82	34	7	1	56	1.37
48093243--48093335	40	2.3	39	80	8	98	34	5	3	56	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48093623--48093661	14	2.8	13	78	14	51	43	0	0	56	0.99
48094271--48094298	2	14.0	2	100	0	56	50	0	0	50	1.00
48096333--48096432	3	33.0	3	68	15	55	34	5	3	58	1.35
48096316--48096383	31	2.4	31	83	11	83	32	7	2	57	1.41
48096333--48096398	20	3.2	20	79	16	82	34	7	1	56	1.37
48096333--48096425	40	2.3	39	80	8	98	34	5	3	56	1.38
48100600--48100666	25	2.6	25	90	4	98	49	0	0	50	1.00
48100926--48101046	38	3.2	38	63	21	99	27	3	12	57	1.51
48100904--48101059	76	2.1	76	100	0	312	25	3	14	56	1.55
48101640--48101677	18	2.1	18	95	0	67	34	7	26	31	1.85
48102299--48102496	108	1.8	108	86	2	290	35	23	14	26	1.94
48103950--48104040	3	30.0	3	89	2	137	34	3	1	61	1.19
48104042--48104090	20	2.5	20	83	6	55	4	16	0	79	0.88
48106600--48107067	44	10.6	44	71	10	242	30	19	20	28	1.97
48106509--48107136	175	3.6	175	88	2	929	31	18	20	29	1.96
48111360--48111384	12	2.1	12	100	0	50	44	0	8	48	1.32
48114932--48114967	15	2.5	14	86	8	54	44	8	0	47	1.33
48115797--48115833	9	4.1	9	89	0	56	48	13	8	29	1.71
48116046--48116105	30	2.0	30	83	3	75	20	35	0	45	1.51
48116203--48116240	20	1.9	20	88	0	58	26	28	0	44	1.54
48116857--48116882	5	5.2	5	100	0	52	19	19	19	42	1.90
48120789--48120885	41	2.4	41	80	3	106	17	18	30	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48120847--48120945	40	2.4	41	74	1	101	21	22	25	31	1.98
48121929--48121985	14	4.1	14	82	6	71	19	0	49	31	1.49
48121922--48122032	7	16.0	7	72	10	59	19	0	41	38	1.52
48125989--48126106	43	2.8	43	84	6	143	21	18	32	27	1.97
48125966--48126107	42	3.3	43	79	6	157	21	18	30	29	1.97
48132101--48132141	11	3.7	11	100	0	82	34	0	0	65	0.93
48135783--48135889	50	2.1	51	84	1	135	33	9	2	54	1.47
48136110--48136158	12	3.9	12	79	15	55	14	6	4	75	1.14
48136187--48136233	18	2.6	18	82	0	58	38	4	2	55	1.31
48139429--48139473	18	2.5	18	85	7	65	44	17	0	37	1.49
48143965--48144024	18	3.3	17	77	11	57	81	1	16	0	0.77
48144904--48145768	45	18.7	45	71	10	433	32	17	21	29	1.96
48145006--48145345	44	7.6	44	76	7	227	31	18	22	28	1.97
48145048--48145345	89	3.3	89	80	8	323	31	18	21	28	1.97
48144905--48145472	96	6.1	93	76	7	379	33	17	20	29	1.95
48148232--48148270	15	2.6	15	87	0	51	38	5	2	53	1.37
48148231--48148270	18	2.2	18	86	0	53	37	5	2	55	1.35
48151692--48151893	89	2.2	90	82	10	243	38	19	7	34	1.80
48151924--48151996	26	2.8	26	79	6	76	54	2	1	41	1.23
48152028--48152075	20	2.2	23	82	14	66	60	6	4	29	1.40
48152274--48152418	10	15.0	9	71	14	51	29	4	2	64	1.24
48152255--48152318	19	3.4	18	74	8	56	32	6	1	59	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48152257--48152332	38	2.0	39	82	7	93	32	5	2	59	1.34
48152336--48152362	10	2.7	10	100	0	54	29	7	0	62	1.22
48152360--48152411	10	5.4	10	79	6	54	28	1	1	67	1.12
48152274--48152418	19	7.6	19	68	11	84	29	4	2	64	1.24
48152312--48152438	29	4.4	28	71	17	82	32	2	2	62	1.20
48152312--48152411	20	5.0	21	71	10	68	30	3	2	65	1.19
48152946--48152975	15	2.1	15	93	6	53	0	10	0	90	0.47
48162697--48162749	25	2.1	25	86	6	72	37	16	22	22	1.94
48169149--48169191	15	2.8	16	79	10	54	79	6	4	9	1.06
48174402--48174448	9	5.3	9	85	9	62	51	6	0	42	1.27
48174599--48174646	2	24.0	2	95	0	87	47	0	0	52	1.00
48176813--48176856	23	2.0	23	82	13	56	59	0	2	38	1.10
48182996--48183057	26	2.3	27	75	2	72	22	12	8	56	1.62
48186418--48186445	6	4.7	6	100	0	56	32	35	14	17	1.90
48189111--48189174	2	32.0	2	96	0	119	48	0	1	50	1.10
48195963--48196002	9	4.2	9	81	12	53	40	25	0	35	1.56
48197579--48197637	29	2.0	29	96	0	109	27	18	10	44	1.82
48198780--48198817	18	2.2	18	85	4	51	63	0	0	36	0.95
48198850--48198900	22	2.3	23	90	10	79	66	5	0	27	1.14
48198913--48198955	21	2.1	21	87	8	63	58	4	0	37	1.19
48198920--48199012	9	11.1	8	67	24	50	55	6	0	37	1.25
48198836--48198982	10	14.7	9	70	17	69	58	5	0	35	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48198948--48198987	19	2.0	20	86	13	57	55	5	0	40	1.22
48201674--48201738	16	4.1	16	89	0	103	40	4	30	24	1.75
48201676--48201747	32	2.2	32	92	0	117	40	4	30	25	1.74
48201727--48201818	44	2.1	44	84	10	116	33	4	26	35	1.76
48203480--48203554	29	2.6	29	81	14	91	32	1	5	61	1.27
48203480--48203554	10	7.7	10	72	10	57	32	1	5	61	1.27
48209374--48209429	27	2.1	27	82	0	67	30	33	28	7	1.84
48209576--48209619	20	2.1	21	84	12	56	65	0	31	2	1.05
48209996--48210047	3	17.3	3	95	0	95	34	0	0	65	0.93
48209920--48210022	40	2.5	41	77	14	115	35	4	6	52	1.49

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