genome.fa.s3.2.7.7.80.10.50.1000.115.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  115  of  150  ( 17918 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)
35535184--35535347	86	1.9	86	87	2	240	36	21	9	31	1.86
35535721--35535813	8	10.5	8	72	14	51	24	4	2	68	1.18
35535747--35535816	18	3.8	18	77	3	86	21	5	2	70	1.22
35535712--35535836	54	2.3	55	84	6	155	28	4	1	65	1.20
35535737--35535825	37	2.3	38	79	9	110	23	5	2	68	1.22
35535746--35535823	18	4.3	18	69	9	68	23	5	2	69	1.21
35535910--35536106	91	2.2	89	88	2	288	31	11	20	36	1.88
35536861--35536914	23	2.4	23	81	3	74	55	9	3	31	1.49
35537127--35537177	21	2.4	22	80	6	70	54	7	3	33	1.47
35536776--35537304	263	2.0	265	96	1	990	41	10	15	32	1.81
35538408--35538486	2	39.5	2	94	0	140	48	1	1	49	1.17
35547381--35547429	19	2.6	19	84	9	64	63	0	10	26	1.26
35547436--35547494	30	1.9	32	83	13	79	45	1	5	47	1.34
35547664--35547721	19	3.1	19	74	16	57	31	1	0	67	1.01
35548267--35548305	20	2.1	18	85	9	51	33	7	0	58	1.26
35552843--35552912	22	3.3	20	84	11	61	24	27	10	38	1.87
35552857--35552935	22	3.6	22	92	0	122	27	26	12	32	1.93
35561460--35561513	24	2.2	24	83	9	65	42	0	7	50	1.30
35561870--35561909	13	3.2	13	85	3	55	70	2	2	25	1.13
35563593--35563650	2	29.0	2	100	0	116	50	0	50	0	1.00
35570899--35571026	35	3.6	35	74	6	114	37	34	13	14	1.86
35573739--35573817	38	2.1	38	100	0	158	34	13	5	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35593095--35593208	11	10.4	11	75	16	103	59	0	1	38	1.08
35593105--35593138	17	2.0	17	94	0	59	61	0	0	38	0.96
35593095--35593229	50	2.8	48	85	9	170	61	0	1	37	1.05
35593146--35593227	37	2.2	36	91	8	137	63	0	1	35	1.02
35593195--35593237	16	2.6	16	81	3	50	62	0	0	37	0.95
35596199--35596250	21	2.5	21	83	0	68	32	50	13	3	1.60
35596385--35596455	25	2.7	28	77	16	80	42	1	4	52	1.29
35599418--35599684	125	2.2	125	82	4	346	30	17	16	35	1.92
35599743--35599872	34	3.8	34	80	7	147	40	16	2	40	1.62
35599896--35599958	33	1.9	33	86	0	90	44	20	1	33	1.61
35607275--35607299	12	2.1	12	100	0	50	56	16	8	20	1.65
35616719--35616849	37	3.5	37	77	10	142	16	14	32	36	1.89
35620361--35620408	16	2.9	16	80	14	53	60	0	2	37	1.09
35620866--35620948	38	2.2	38	93	4	141	37	2	0	60	1.10
35620881--35620952	28	2.4	29	82	11	76	38	2	0	58	1.13
35622513--35624317	900	2.0	899	99	0	3549	30	15	17	35	1.91
35625833--35625890	29	2.0	29	89	0	89	10	39	13	36	1.79
35630125--35630187	13	4.9	13	86	7	85	39	23	7	28	1.83
35630128--35630187	25	2.3	26	86	8	88	41	25	8	25	1.83
35635284--35635320	9	4.1	9	89	0	56	43	13	13	29	1.82
35635679--35635709	16	1.9	16	93	0	53	25	29	0	45	1.54
35640827--35640861	12	2.8	13	91	8	56	74	0	5	20	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35640826--35640876	4	12.2	4	76	15	50	70	0	3	25	1.04
35645980--35646029	24	2.1	25	81	7	59	8	10	10	72	1.30
35646206--35646253	25	1.9	25	91	8	80	35	2	8	54	1.42
35652236--35652265	10	3.0	10	95	0	51	50	6	0	43	1.28
35653084--35653116	17	1.9	17	93	0	57	36	3	9	51	1.49
35653125--35653163	16	2.5	16	83	4	53	46	0	7	46	1.31
35653095--35653243	61	2.5	61	79	5	169	41	4	8	46	1.52
35653466--35653511	7	6.6	7	78	16	51	60	10	0	28	1.30
35653387--35653650	95	2.8	95	88	1	377	45	15	3	34	1.64
35653466--35653511	15	3.3	15	82	11	62	60	10	0	28	1.30
35653507--35653564	21	2.8	20	82	15	73	43	15	3	37	1.64
35653602--35653653	22	2.4	21	87	3	68	40	19	1	38	1.63
35653732--35653799	9	8.0	9	85	12	83	44	20	1	33	1.61
35653761--35653806	7	6.0	7	90	9	56	52	17	0	30	1.45
35653734--35653806	32	2.2	33	88	9	105	46	19	1	32	1.58
35656834--35656872	19	2.1	19	95	0	69	35	7	10	46	1.67
35659337--35659403	21	3.2	21	86	0	98	29	17	47	4	1.67
35659712--35659874	42	3.9	42	91	3	265	34	20	21	23	1.96
35671667--35671719	20	2.6	20	87	3	70	32	3	1	62	1.24
35671688--35671727	21	2.0	21	85	5	55	40	2	2	55	1.27
35671706--35671803	42	2.2	45	77	15	107	35	3	4	57	1.33
35671719--35671800	44	1.9	42	83	14	105	36	2	4	56	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35672428--35672489	21	2.9	21	75	11	63	48	1	0	50	1.10
35675499--35675618	50	2.4	50	92	0	195	28	13	17	40	1.87
35679918--35679958	22	1.9	21	85	5	55	4	39	2	53	1.35
35681439--35681503	34	1.9	34	100	0	130	55	0	7	36	1.29
35684837--35684918	19	4.2	19	75	9	76	53	1	0	45	1.08
35698560--35698778	110	2.0	110	92	0	366	31	13	23	31	1.93
35702252--35702320	25	2.8	25	76	14	79	33	23	23	20	1.97
35702469--35702510	20	2.1	20	82	8	50	57	9	0	33	1.31
35709700--35709769	25	2.8	25	83	12	90	28	20	27	24	1.99
35715470--35715505	17	2.1	17	89	0	54	66	2	0	30	1.06
35715659--35715688	2	15.0	2	92	0	51	50	0	3	46	1.18
35719994--35720040	19	2.3	21	73	23	55	46	0	2	51	1.13
35720402--35720426	13	1.9	13	100	0	50	64	4	0	32	1.12
35720405--35720449	21	2.1	21	83	4	54	66	4	4	24	1.29
35722733--35722793	30	2.0	31	87	6	90	21	40	0	37	1.53
35722834--35722871	20	2.0	20	94	5	69	26	36	0	36	1.57
35738165--35738249	43	2.0	43	97	0	161	52	15	4	27	1.62
35738271--35738317	19	2.5	19	93	3	78	44	10	4	40	1.59
35739754--35739800	24	2.0	24	83	8	60	17	29	0	53	1.44
35746713--35746746	16	2.2	15	89	5	50	35	0	2	61	1.11
35747168--35747207	3	13.3	3	100	0	80	32	0	0	67	0.91
35753005--35753030	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35758376--35758410	18	1.9	18	94	0	61	42	0	0	57	0.99
35800612--35800697	26	3.2	26	63	18	66	41	25	3	29	1.72
35800592--35800704	56	2.0	56	100	0	226	43	24	3	28	1.71
35802422--35802504	44	1.9	43	90	2	130	36	6	4	53	1.47
35807169--35807254	30	3.0	29	82	12	108	44	6	23	25	1.78
35807167--35807255	25	3.1	30	82	12	116	42	6	24	25	1.79
35809606--35809653	3	16.0	3	82	0	60	58	4	0	37	1.18
35809607--35809653	18	2.6	18	93	0	76	57	4	0	38	1.18
35809606--35809653	12	4.0	12	91	0	69	58	4	0	37	1.18
35810409--35810446	3	12.7	3	100	0	76	65	0	0	34	0.93
35810445--35810487	3	14.3	3	100	0	86	32	0	0	67	0.91
35810591--35810636	14	3.3	14	93	0	83	56	2	0	41	1.11
35810581--35810647	28	2.3	28	76	5	80	44	2	0	52	1.16
35817508--35817537	7	4.3	7	100	0	60	0	26	0	73	0.84
35818120--35818162	18	2.4	18	88	0	59	41	44	2	11	1.53
35818269--35818353	9	9.4	9	90	0	134	23	9	24	42	1.84
35818269--35818353	18	4.7	18	97	0	152	23	9	24	42	1.84
35819535--35819582	25	1.9	25	86	0	69	41	6	6	45	1.54
35819716--35819756	6	7.0	6	89	10	59	63	0	0	36	0.95
35822361--35822496	43	3.2	43	80	7	152	31	27	15	25	1.96
35822941--35823003	29	2.2	29	94	5	110	60	0	3	36	1.13
35822941--35822999	11	5.6	11	73	22	56	57	0	3	38	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35822952--35822985	18	1.9	18	94	5	61	61	0	2	35	1.11
35824673--35824706	13	2.6	13	95	0	59	29	14	32	23	1.94
35826371--35826442	22	3.3	21	74	16	67	45	30	1	22	1.61
35831412--35831484	7	10.3	7	83	2	65	38	43	0	17	1.50
35831441--35831505	14	4.6	14	79	5	69	35	46	0	18	1.50
35831406--35831515	28	4.1	27	71	21	90	40	40	0	19	1.51
35831448--35831513	21	3.1	22	79	12	66	39	42	0	18	1.50
35832931--35832970	2	20.0	2	89	0	62	50	0	0	50	1.00
35844193--35844234	3	14.0	3	100	0	84	33	0	0	66	0.92
35848431--35848526	9	10.0	9	77	16	95	62	3	0	34	1.11

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