genome.fa.s3.2.7.7.80.10.50.1000.146.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  146  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)
44090212--44090251	20	2.0	20	100	0	80	40	15	35	10	1.80
44097226--44097278	21	2.5	21	84	6	63	32	5	3	58	1.39
44097332--44097364	13	2.5	13	95	5	57	48	12	0	39	1.40
44101532--44101596	31	2.1	32	82	8	80	35	16	4	43	1.69
44114417--44114483	5	13.8	5	77	14	61	76	0	23	0	0.79
44114417--44114483	19	3.5	20	86	8	86	76	0	23	0	0.79
44114417--44114486	14	5.3	14	74	16	69	77	0	22	0	0.78
44114417--44114484	20	3.5	19	76	13	68	76	0	23	0	0.79
44117376--44117421	21	2.2	21	88	0	65	34	8	45	10	1.70
44117807--44118009	86	2.4	85	80	6	223	22	20	30	26	1.99
44117742--44118009	43	6.2	43	77	9	197	23	20	29	26	1.99
44120223--44120278	27	2.0	28	89	3	87	46	0	0	53	1.00
44121364--44121388	10	2.5	10	100	0	50	64	0	0	36	0.94
44121347--44121410	28	2.2	29	81	8	69	56	9	1	32	1.41
44136131--44136185	28	2.0	28	100	0	110	52	14	25	7	1.67
44139215--44139274	27	2.2	26	85	11	77	70	3	1	25	1.12
44139744--44139788	20	2.2	20	92	0	72	26	0	2	71	0.98
44139744--44139802	20	3.0	20	83	9	70	30	1	1	66	1.12
44152642--44152778	42	3.5	42	77	17	184	32	27	18	21	1.97
44152536--44152813	75	3.8	75	89	5	442	30	28	20	20	1.98
44156969--44156998	12	2.5	12	94	0	51	26	10	6	56	1.57
44162393--44162438	2	23.0	2	100	0	92	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)
44167213--44167543	164	2.0	164	100	0	662	29	13	25	31	1.94
44169536--44169589	21	2.5	22	77	14	67	50	1	0	48	1.11
44170575--44170609	2	18.0	2	94	5	63	48	0	0	51	1.00
44170868--44170935	20	3.3	20	83	2	82	32	17	4	45	1.68
44182863--44182899	14	2.6	15	83	12	51	54	2	0	43	1.14
44186409--44186445	9	4.1	9	92	0	65	45	13	10	29	1.77
44188283--44188516	110	2.1	110	84	1	308	41	15	20	22	1.90
44188315--44188719	203	2.0	201	85	5	541	43	16	17	21	1.88
44191770--44191832	27	2.3	27	86	0	81	28	31	9	30	1.89
44195882--44195933	26	2.0	26	100	0	104	38	19	0	42	1.51
44208712--44208771	31	1.9	31	82	3	75	45	5	10	40	1.60
44210998--44211031	6	5.7	6	96	0	50	58	8	0	32	1.29
44213569--44213630	2	31.0	2	100	0	124	50	0	0	50	1.00
44224234--44224258	2	12.5	2	100	0	50	48	0	0	52	1.00
44230112--44230349	119	2.0	119	84	3	309	45	11	14	28	1.79
44236201--44236238	16	2.3	17	86	4	51	55	5	2	36	1.37
44249178--44249210	15	2.2	15	100	0	66	57	18	12	12	1.64
44263568--44263631	28	2.2	29	79	15	71	51	1	4	42	1.32
44265532--44265600	31	2.4	26	76	19	66	43	11	8	36	1.72
44271385--44271412	2	14.0	2	100	0	56	50	0	0	50	1.00
44275195--44275222	7	4.0	7	100	0	56	28	0	0	71	0.86
44277804--44277881	36	2.2	36	95	0	138	46	24	3	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44278886--44278933	17	2.9	17	73	14	55	50	31	6	12	1.65
44283065--44283123	31	1.9	31	82	0	73	42	10	3	44	1.55
44292038--44292068	8	3.9	8	100	0	62	48	0	0	51	1.00
44297463--44297517	19	3.1	17	80	12	65	36	0	1	61	1.06
44297463--44297524	5	13.2	5	77	13	69	37	0	1	61	1.06
44297465--44297509	22	2.0	24	91	8	76	42	0	0	57	0.98
44298573--44298634	5	13.2	5	81	13	78	61	0	0	38	0.96
44307605--44307636	15	2.1	15	100	0	64	37	31	6	25	1.81
44329576--44329633	27	2.1	27	96	0	107	24	10	22	43	1.84
44329949--44330047	49	2.0	48	98	1	189	35	8	9	47	1.65
44333318--44333453	48	3.0	48	72	20	157	33	20	4	41	1.72
44333655--44333723	33	2.1	34	91	2	113	36	5	23	34	1.79
44340345--44340372	2	14.0	2	100	0	56	50	0	0	50	1.00
44369640--44369688	2	24.5	2	91	0	62	48	6	2	42	1.39
44370207--44370236	15	2.0	15	100	0	60	53	0	0	46	1.00
44371009--44371160	55	2.8	55	83	3	207	25	9	15	49	1.74
44374493--44374579	30	2.9	30	87	1	93	27	22	6	42	1.79
44374505--44374579	30	2.5	30	91	0	114	28	21	5	45	1.73
44379146--44379239	30	3.1	30	85	1	125	23	24	7	44	1.79
44379744--44379774	16	1.9	16	93	0	53	41	9	16	32	1.80
44380207--44380265	3	19.3	3	76	10	57	61	3	3	32	1.29
44381759--44381869	45	2.5	44	79	1	123	27	30	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44381987--44382365	46	8.2	46	91	1	571	30	27	15	26	1.96
44382338--44382393	28	2.0	28	82	0	67	25	30	10	33	1.90
44382291--44382439	74	2.0	75	89	1	228	28	28	12	29	1.93
44382379--44382651	46	5.9	46	93	2	451	30	28	16	24	1.97
44382199--44382531	167	2.0	166	88	2	499	29	28	14	27	1.95
44382153--44382560	213	1.9	212	92	2	685	30	28	14	26	1.95
44382366--44382651	138	2.1	138	94	1	502	30	28	16	25	1.97
44387587--44387939	87	4.1	87	92	0	562	26	22	26	24	2.00
44387994--44388241	129	1.9	129	80	3	293	30	18	21	29	1.97
44387993--44388189	44	4.6	43	71	7	139	29	20	20	28	1.98
44388974--44388998	13	1.9	13	100	0	50	8	24	0	68	1.16
44397701--44397742	20	2.1	20	90	0	66	30	16	11	40	1.85
44401227--44401261	18	1.9	18	88	0	52	20	20	28	31	1.97
44402496--44402526	15	2.1	15	100	0	62	38	25	12	22	1.90
44402535--44402576	20	2.1	20	90	0	66	30	16	11	40	1.85
44404538--44404578	21	2.0	21	85	9	57	34	43	0	21	1.53
44409367--44409391	2	12.5	2	100	0	50	52	0	48	0	1.00
44415530--44415572	22	2.0	22	81	9	52	9	11	13	65	1.48
44415681--44415718	16	2.4	16	86	4	51	5	10	7	76	1.15
44416195--44416265	3	22.7	3	77	8	54	35	2	0	61	1.10
44416224--44416269	9	5.3	9	84	10	69	41	2	0	56	1.11
44416209--44416269	25	2.5	25	91	2	97	37	1	0	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44417679--44417751	32	2.3	31	83	9	94	45	4	12	38	1.61
44418578--44418625	19	2.5	19	83	9	62	83	2	10	4	0.87
44418578--44418625	9	5.1	9	82	9	60	83	2	10	4	0.87
44419479--44420240	128	6.0	128	92	0	1202	25	20	22	31	1.98
44419780--44420152	84	4.4	84	67	12	249	24	20	23	31	1.98
44419830--44420192	84	4.3	85	68	11	240	25	20	23	30	1.99
44420235--44420480	90	2.7	90	88	5	390	29	23	16	29	1.97
44420235--44420480	45	5.5	45	88	5	340	29	23	16	29	1.97
44421137--44421345	108	1.9	107	85	6	289	47	9	17	25	1.77
44421681--44421722	10	4.3	10	82	14	52	4	9	2	83	0.88
44422178--44422234	21	2.5	23	80	13	73	3	14	7	75	1.14
44425863--44425932	32	2.2	32	85	10	90	45	5	10	38	1.61
44426741--44426774	11	3.0	11	91	4	50	85	0	14	0	0.60
44426742--44426791	20	2.5	20	81	15	59	84	2	10	4	0.84
44426741--44426774	12	2.8	12	90	4	50	85	0	14	0	0.60
44431951--44432003	27	2.0	26	82	14	63	9	28	1	60	1.38
44437174--44437245	28	2.6	29	84	8	96	47	12	4	36	1.61
44437191--44437247	28	2.0	28	96	0	105	49	10	3	36	1.55
44438792--44438944	74	2.1	74	93	0	261	23	17	26	32	1.97
44439475--44439522	7	6.6	7	78	7	51	37	2	0	60	1.09
44439462--44439524	21	3.0	22	83	4	76	34	1	0	63	1.04
44441896--44442124	55	4.2	55	84	1	253	26	10	17	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44441908--44442126	110	2.0	110	84	1	287	26	9	17	47	1.77
44456214--44456434	55	4.0	55	81	0	235	28	8	16	46	1.76
44457575--44457770	55	3.6	55	86	4	288	24	8	17	48	1.75
44459619--44459804	74	2.5	75	91	1	284	41	26	6	25	1.79
44459861--44459997	42	3.3	42	92	0	211	14	27	13	43	1.84
44465788--44465907	59	2.0	59	100	0	240	31	33	15	20	1.93
44466963--44467024	30	2.0	31	93	3	108	38	27	16	17	1.91
44470888--44470949	25	2.5	26	81	7	83	37	3	4	54	1.38
44481247--44481340	48	2.0	47	93	2	161	31	19	4	44	1.70
44483111--44483137	14	1.9	14	100	0	54	44	7	11	37	1.68

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