genome.fa.s10.2.7.7.80.10.50.1000.22.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   200   201   202   

This is table  22  of  202  ( 24201 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)
6596385--6596476	45	2.0	45	97	0	175	47	33	9	8	1.67
6598069--6598101	17	2.0	17	88	5	50	54	0	0	45	0.99
6598536--6598716	92	2.0	92	82	8	226	45	7	3	43	1.47
6605041--6605241	97	2.1	97	99	0	393	37	7	13	41	1.73
6605326--6605352	13	2.1	13	100	0	54	37	0	7	55	1.28
6605823--6605908	43	2.0	43	100	0	172	27	13	16	41	1.86
6605830--6605899	23	3.2	23	61	19	58	22	15	17	44	1.86
6605998--6606091	46	2.0	46	100	0	188	40	17	12	29	1.86
6607263--6607457	98	2.0	98	98	0	381	35	26	11	26	1.90
6608117--6608164	25	2.0	25	91	4	80	56	6	6	31	1.49
6608919--6609050	19	6.8	19	89	3	210	36	15	9	38	1.80
6608912--6609049	59	2.4	59	90	4	212	36	14	9	39	1.79
6609223--6609693	44	10.9	44	73	12	332	27	23	20	28	1.99
6609365--6609602	128	1.9	128	84	5	329	28	21	21	28	1.99
6609235--6609772	172	3.1	172	86	5	653	28	23	20	28	1.99
6609764--6610020	132	1.9	132	93	1	444	23	24	22	29	1.99
6610386--6611089	350	2.0	350	99	0	1390	28	22	14	34	1.93
6617617--6617674	30	1.9	30	86	6	82	41	3	25	29	1.72
6617886--6617917	13	2.5	13	94	0	55	31	0	12	56	1.37
6618012--6618254	50	4.8	50	92	0	387	25	23	30	20	1.98
6621111--6621159	26	2.0	25	88	8	73	55	6	6	32	1.49
6621921--6622052	19	6.8	19	89	6	212	37	15	9	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6621914--6622051	59	2.4	59	90	7	214	37	14	9	38	1.79
6624209--6624233	6	4.2	6	100	0	50	20	0	0	80	0.72
6624388--6624422	15	2.2	16	90	10	54	60	0	0	40	0.97
6624858--6624929	33	2.3	31	83	9	83	51	8	5	34	1.55
6626277--6626316	17	2.4	17	87	8	55	35	0	0	65	0.93
6626413--6626444	17	1.9	16	93	6	55	71	0	21	6	1.07
6627125--6627149	7	3.6	7	100	0	50	16	0	0	84	0.63
6631488--6631526	2	20.0	2	89	5	62	48	2	0	48	1.15
6632380--6632425	22	2.0	23	84	12	60	43	6	0	50	1.28
6632380--6632425	23	2.0	22	84	12	58	43	6	0	50	1.28
6632406--6632472	25	2.7	26	77	13	63	47	1	0	50	1.10
6639948--6640938	29	36.3	29	77	13	724	33	1	22	42	1.63
6640221--6640301	23	3.3	23	75	18	72	37	1	20	40	1.61
6640162--6640933	28	28.8	25	74	18	171	33	1	22	43	1.61
6640726--6640840	23	4.9	21	84	11	95	32	0	21	46	1.52
6643084--6643117	15	2.3	15	90	5	52	67	5	0	26	1.13
6643315--6643356	22	1.9	22	90	0	66	33	0	33	33	1.58
6643328--6643386	30	2.0	30	96	0	109	32	0	35	32	1.58
6643306--6643408	52	2.0	51	84	5	136	33	1	32	33	1.69
6643357--6643427	22	3.2	22	90	7	108	36	1	28	33	1.66
6643895--6643940	23	2.1	22	88	8	67	63	0	2	34	1.07
6656080--6656104	12	2.1	12	100	0	50	44	24	8	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6659665--6659709	24	1.9	23	90	4	72	42	4	4	48	1.43
6659673--6659711	17	2.5	15	80	15	51	43	2	2	51	1.29
6665791--6665839	21	2.3	21	86	6	64	67	0	20	12	1.22
6665792--6665841	14	3.6	14	79	15	59	66	0	22	12	1.24
6667096--6667310	44	4.9	44	80	5	245	30	13	22	32	1.93
6667429--6668268	44	19.0	44	80	3	776	30	13	23	32	1.93
6667429--6668297	89	9.8	89	83	4	884	30	13	23	31	1.93
6667484--6668268	133	5.9	130	86	3	847	30	13	23	32	1.93
6668474--6668513	21	1.9	21	94	0	71	42	17	15	25	1.88
6670879--6670970	19	4.8	19	89	0	148	40	8	14	36	1.76
6672709--6672754	9	5.1	9	89	0	74	30	13	13	43	1.81
6672808--6672838	9	3.4	9	90	0	53	38	22	12	25	1.90
6680723--6680908	77	2.4	77	100	0	372	23	30	15	30	1.95
6685504--6685563	25	2.4	25	97	2	113	31	10	33	25	1.89
6689109--6689997	43	20.9	41	75	6	581	18	34	30	16	1.93
6689104--6689986	85	10.4	84	79	4	813	18	33	30	16	1.93
6689205--6689928	256	2.8	253	88	2	1038	18	33	31	16	1.94
6689107--6689999	128	7.0	128	78	5	869	18	33	30	16	1.93
6690004--6690082	24	3.3	24	82	5	97	18	31	40	8	1.82
6690292--6690626	42	7.9	41	75	11	257	21	34	26	17	1.96
6690292--6690621	84	3.9	84	79	5	326	21	34	26	17	1.96
6690341--6690612	85	3.2	85	82	5	318	21	34	26	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6695770--6696178	43	9.6	42	78	4	338	20	36	28	14	1.92
6695790--6696117	85	3.9	83	79	5	325	18	36	30	14	1.91
6695770--6696177	85	4.8	84	76	7	322	20	36	28	14	1.92
6701926--6702066	41	3.4	41	87	1	140	19	29	19	31	1.97
6701961--6702071	41	2.7	41	94	0	186	18	30	22	28	1.97
6703743--6704207	43	10.9	43	75	6	383	18	32	31	17	1.94
6703704--6704207	85	5.9	85	81	3	564	18	32	31	17	1.94
6704218--6704290	24	3.0	24	89	0	110	19	32	38	9	1.84
6704500--6704751	42	5.9	42	79	6	267	20	33	27	18	1.96
6704500--6704753	85	3.0	85	80	4	280	20	33	27	18	1.96
6711031--6711932	132	6.8	132	94	0	1511	28	18	24	29	1.98
6712259--6712370	19	5.9	19	89	0	170	37	8	14	40	1.75
6712259--6712370	57	2.0	57	96	0	206	37	8	14	40	1.75
6716132--6716176	21	2.0	21	83	12	54	44	0	2	53	1.13
6716252--6716293	20	2.0	22	86	9	61	45	0	0	54	0.99
6716298--6716353	19	3.2	19	70	14	57	48	1	0	50	1.11
6716304--6716351	15	2.9	15	77	17	51	54	2	0	43	1.12
6717134--6717211	28	2.7	28	75	20	79	11	8	6	73	1.26
6718685--6718716	14	2.3	14	100	0	64	6	15	46	31	1.71
6723816--6723847	14	2.3	14	100	0	64	6	15	46	31	1.71
6726618--6726842	10	23.4	9	65	21	68	62	0	6	31	1.23
6726655--6726709	21	2.7	20	77	5	65	58	0	3	38	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6726652--6726757	21	5.3	20	66	24	64	58	0	3	37	1.16
6726652--6726757	20	5.4	19	70	19	76	58	0	3	37	1.16
6726752--6726824	37	2.0	37	86	2	103	63	1	8	27	1.31
6726761--6726889	38	3.5	37	76	10	113	62	0	9	27	1.31
6726698--6726908	94	2.3	93	90	6	329	61	1	8	28	1.34
6726718--6726834	57	2.1	57	82	6	141	63	0	7	28	1.28
6726763--6726910	18	7.8	20	68	17	102	62	1	8	27	1.32
6727130--6727175	21	2.2	21	84	0	56	41	2	0	56	1.11
6727339--6727387	19	2.6	19	76	0	53	28	4	0	67	1.09
6727375--6727419	21	2.1	21	83	0	54	40	2	0	57	1.11
6726937--6727477	244	2.2	244	90	3	849	31	9	10	48	1.70
6727543--6727712	90	1.9	90	81	7	211	37	9	15	38	1.80
6740135--6740218	23	3.5	22	76	12	78	25	26	19	29	1.98
6743643--6743756	44	2.6	44	91	0	183	28	24	14	31	1.95
6743842--6744041	44	4.5	44	67	7	127	27	24	19	28	1.99
6743771--6744283	132	3.9	132	90	0	778	28	23	19	28	1.98
6744176--6744386	107	2.0	107	92	0	350	28	24	18	28	1.98
6744283--6745134	132	6.4	132	86	2	1147	28	24	19	28	1.98
6744044--6744522	239	2.0	239	88	1	719	28	23	18	29	1.98
6743771--6745134	397	3.5	380	82	9	1579	28	23	19	28	1.98
6750157--6750193	7	5.6	7	87	12	60	59	13	13	13	1.62
6750158--6750192	6	5.5	6	90	10	52	57	14	14	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6750158--6750193	13	2.8	13	100	0	72	58	13	13	13	1.64
6753464--6753501	15	2.5	15	95	0	67	68	7	18	5	1.34
6755995--6756039	22	2.0	22	83	8	56	37	8	2	51	1.46
6757849--6757883	17	2.1	16	89	5	52	25	0	0	74	0.82
6757848--6757882	9	3.9	9	92	7	54	25	0	0	74	0.82
6759036--6759061	13	2.0	13	100	0	52	7	23	38	30	1.83
6760653--6760700	24	2.0	24	100	0	96	50	0	8	41	1.33
6761901--6761955	20	2.5	23	85	11	80	52	5	3	38	1.42
6763900--6763938	2	19.5	2	89	0	60	51	43	5	0	1.24
6774307--6774655	188	1.9	188	79	3	398	30	18	17	32	1.95

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   200   201   202