genome.fa.s9.2.7.7.80.10.50.1000.89.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  89  of  226  ( 27023 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)
31361141--31361320	91	2.0	91	96	2	335	27	13	17	41	1.87
31362699--31362759	31	1.9	32	83	3	79	37	9	16	36	1.82
31371113--31371169	19	2.7	22	76	15	66	40	17	7	35	1.77
31371103--31371160	22	2.6	22	81	7	64	41	17	5	36	1.72
31371593--31372018	131	3.2	132	82	3	518	27	25	19	27	1.98
31371998--31372260	89	3.0	89	85	1	348	24	23	25	26	2.00
31372365--31372470	44	2.4	44	79	3	115	31	20	19	28	1.97
31372580--31372998	44	9.5	44	75	8	262	26	24	17	31	1.97
31372573--31372998	178	2.4	178	85	1	570	26	24	17	31	1.97
31372580--31373005	45	9.6	44	73	9	190	27	23	17	31	1.97
31373294--31373369	24	3.2	24	96	0	134	27	22	14	35	1.93
31374283--31374315	9	3.8	9	88	8	50	15	0	3	81	0.80
31377563--31377609	19	2.5	20	86	6	62	42	10	21	25	1.85
31379391--31379423	15	2.1	16	88	5	50	63	0	6	30	1.18
31380312--31380349	18	2.2	17	90	9	60	44	0	0	55	0.99
31380366--31380435	7	9.4	7	79	14	52	64	0	0	35	0.94
31380366--31380431	23	3.0	22	84	6	82	63	0	0	36	0.95
31380370--31380431	14	4.4	14	82	8	72	62	0	0	37	0.95
31380456--31380525	17	4.2	17	75	14	65	64	1	1	32	1.11
31380627--31380674	9	5.6	9	78	9	55	33	0	0	66	0.92
31380627--31380676	17	2.9	17	85	8	66	36	0	0	64	0.94
31383366--31383434	31	2.3	31	89	2	104	42	10	10	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31393683--31393818	45	3.0	46	81	6	145	37	14	23	24	1.92
31394253--31394298	24	1.9	24	86	0	65	67	2	6	23	1.25
31395828--31395881	22	2.5	22	77	17	67	40	5	1	51	1.36
31405161--31405337	90	2.0	90	85	3	241	37	21	9	32	1.85
31405362--31405420	19	3.0	20	85	4	77	62	0	1	35	1.05
31405343--31405473	19	6.4	19	70	15	73	59	0	1	38	1.07
31405443--31405481	19	2.0	19	90	5	60	61	2	2	33	1.23
31407193--31407273	38	2.1	38	86	0	108	35	17	16	30	1.92
31410728--31410780	23	2.4	22	84	12	65	35	7	13	43	1.72
31426296--31426348	25	2.1	25	96	0	97	49	13	18	18	1.80
31433316--31433366	22	2.3	22	79	0	57	33	19	13	33	1.91
31440273--31440340	20	3.5	20	73	19	54	64	0	30	4	1.13
31443404--31443457	23	2.3	23	75	12	56	18	16	20	44	1.87
31447321--31447363	22	1.9	22	81	13	52	41	16	11	30	1.83
31465488--31465532	21	2.0	23	83	8	58	26	4	2	66	1.22
31476907--31476937	14	2.2	14	100	0	62	45	12	6	35	1.68
31480881--31480918	19	2.0	19	89	0	58	52	2	0	44	1.14
31480938--31480995	30	1.9	30	86	6	82	60	1	3	34	1.24
31482224--31482262	19	2.0	20	85	5	53	38	0	15	46	1.46
31486987--31487069	21	4.0	21	72	0	76	15	21	19	43	1.88
31486989--31487159	42	4.1	42	80	1	157	16	22	18	41	1.90
31494259--31494424	21	8.0	21	65	7	70	20	22	16	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31494289--31494459	42	4.1	42	78	10	154	19	22	16	42	1.89
31498158--31498255	25	4.0	24	76	15	101	23	20	19	36	1.95
31499967--31500140	45	3.9	45	84	1	170	20	19	17	41	1.90
31499924--31500182	90	2.9	89	73	9	204	19	18	16	44	1.87
31500252--31500285	15	2.3	15	90	10	52	52	11	0	35	1.38
31501835--31501882	24	2.0	23	88	4	69	20	2	4	72	1.11
31506269--31506350	27	3.0	27	92	0	128	37	17	21	23	1.93
31506493--31506589	35	2.8	35	83	0	131	26	22	18	31	1.97
31507151--31507199	20	2.5	20	86	0	71	46	20	8	24	1.77
31508321--31508375	23	2.4	23	90	0	83	27	12	12	47	1.78
31510946--31511009	3	21.3	3	96	0	119	0	32	0	67	0.91
31519100--31519358	76	3.4	75	89	3	394	23	17	25	33	1.96
31519143--31519357	43	5.5	40	70	20	161	23	17	24	34	1.95
31519261--31519462	103	2.0	103	91	0	332	20	18	27	33	1.96
31519338--31519485	33	4.4	33	71	22	103	20	19	28	31	1.97
31524717--31524799	22	3.7	21	73	19	62	4	26	1	67	1.18
31526362--31526618	127	2.0	128	92	0	426	23	10	19	46	1.80
31526865--31526921	30	1.9	30	92	0	96	31	22	17	28	1.97
31529322--31529369	13	3.8	13	77	5	62	43	0	2	54	1.12
31530353--31530396	22	2.0	23	86	4	63	40	6	9	43	1.63
31539381--31539406	13	2.0	13	100	0	52	46	23	0	30	1.53
31539648--31539673	5	5.2	5	100	0	52	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31549389--31549425	17	2.1	18	90	5	58	10	35	35	18	1.86
31550985--31551054	16	4.4	16	96	0	104	31	0	35	32	1.58
31551033--31551142	45	2.6	43	80	9	129	33	5	29	31	1.80
31551268--31551309	15	2.7	16	82	14	52	52	2	0	45	1.13
31551277--31551318	15	2.9	15	82	10	52	52	0	0	47	1.00
31551425--31551591	47	3.6	46	71	12	146	47	4	2	45	1.35
31551484--31551555	28	2.6	28	84	8	85	51	4	0	44	1.20
31551723--31551767	22	2.0	22	100	0	90	42	13	0	44	1.43
31555409--31555511	41	2.5	40	85	3	143	14	31	18	35	1.91
31555409--31555567	20	7.9	19	66	15	72	14	31	18	35	1.91
31561950--31561983	12	2.7	13	95	4	61	14	0	26	58	1.36
31563614--31563664	9	5.6	9	77	9	50	35	1	41	21	1.65
31565288--31565319	3	10.7	3	100	0	64	34	0	34	31	1.58
31565925--31565955	3	10.3	3	100	0	62	67	0	0	32	0.91
31566816--31566849	6	5.7	6	89	0	50	0	61	17	20	1.34
31569188--31569221	3	11.3	3	100	0	68	32	0	0	67	0.91
31580605--31580727	46	2.6	45	81	6	113	26	18	18	35	1.94
31581480--31581557	31	2.6	30	83	6	86	43	16	10	29	1.81
31583727--31583771	18	2.5	18	78	7	56	42	17	2	37	1.62
31587502--31587566	20	3.3	20	66	12	62	26	18	36	18	1.94
31587480--31587618	39	3.6	39	89	0	188	34	20	28	16	1.94
31587471--31587582	19	5.8	20	66	13	63	34	18	31	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31594412--31594455	22	2.0	22	86	8	63	38	2	4	54	1.33
31595084--31595193	54	2.0	54	98	0	211	32	22	12	31	1.92
31595093--31595177	26	3.2	26	68	12	82	36	22	12	28	1.91
31604953--31605008	28	2.0	28	89	0	85	30	25	23	21	1.99
31605383--31605519	27	5.1	27	85	0	170	22	13	18	44	1.86
31605383--31605519	54	2.6	53	92	2	222	22	13	18	44	1.86
31605600--31606740	570	2.0	570	93	1	1957	41	19	18	20	1.91
31615685--31615709	13	1.9	13	100	0	50	16	44	8	32	1.76
31617289--31617326	13	2.8	14	80	19	53	65	5	5	23	1.34
31617682--31617762	26	3.0	26	73	16	69	58	6	3	32	1.41
31617923--31617957	17	2.1	17	88	0	52	54	0	8	37	1.31
31618415--31618473	21	2.7	22	76	10	59	40	13	6	38	1.71
31623210--31623272	29	2.1	30	88	8	94	36	19	4	39	1.72
31623220--31623283	29	2.2	29	86	5	85	31	25	3	40	1.71
31624060--31624168	26	4.2	27	82	6	118	26	13	22	36	1.92
31625596--31625701	37	2.9	37	91	2	162	25	22	16	35	1.94
31625664--31625833	46	3.6	46	86	7	232	28	21	14	35	1.93
31625707--31625819	51	2.2	52	88	3	165	29	22	12	36	1.90
31629316--31629383	30	2.2	31	84	2	84	45	5	20	27	1.74
31633763--31633885	50	2.5	50	84	0	165	27	24	26	21	1.99
31634158--31634196	20	2.0	20	90	10	62	56	5	23	15	1.59
31657352--31657416	29	2.6	24	75	25	71	16	13	15	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31657744--31657783	21	1.9	21	100	0	80	32	27	10	30	1.89
31661210--31661267	29	2.0	29	83	6	73	37	5	3	53	1.40
31662588--31662647	18	3.5	17	71	24	54	40	8	5	46	1.56
31663778--31663827	22	2.3	22	92	0	82	28	32	0	40	1.57
31663799--31663857	30	2.0	30	93	0	100	28	33	0	37	1.58
31663778--31663880	52	2.0	52	96	0	188	30	33	0	36	1.58
31663829--31663879	22	2.3	22	93	6	86	29	35	0	35	1.58
31663915--31663978	29	2.2	29	94	0	110	34	0	0	65	0.93
31665051--31665082	7	4.6	7	96	0	55	25	0	12	62	1.30
31666289--31666458	29	5.8	29	90	2	268	45	27	0	27	1.54

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226