genome.fa.s10.2.7.7.80.10.50.1000.31.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  31  of  172  ( 20562 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)
9580871--9580901	14	2.2	14	100	0	62	16	29	6	48	1.70
9582666--9582720	27	2.0	27	92	0	92	14	10	21	52	1.72
9583068--9583117	15	3.5	15	69	20	52	60	20	4	16	1.52
9583068--9583127	28	2.1	28	100	0	120	58	20	3	18	1.53
9584731--9584779	19	2.5	20	87	9	66	55	6	0	38	1.25
9584791--9584845	19	2.9	19	78	2	67	65	3	1	29	1.20
9598226--9598319	47	2.0	48	95	2	172	37	19	10	32	1.86
9610558--9610673	60	1.9	60	86	6	164	36	15	28	19	1.93
9616988--9617040	15	3.5	15	92	0	88	11	13	15	60	1.59
9630127--9630241	27	4.3	26	87	5	149	36	23	23	16	1.94
9630127--9630241	54	2.1	54	88	3	169	36	23	23	16	1.94
9631848--9631957	26	4.2	26	91	4	161	38	23	4	33	1.75
9635538--9635599	25	2.5	25	94	0	106	19	22	14	43	1.87
9635890--9635918	6	4.8	6	100	0	58	68	0	0	31	0.89
9644214--9644359	40	3.7	40	83	5	179	26	27	21	23	1.99
9647092--9647157	32	2.1	32	100	0	132	37	15	0	46	1.46
9649930--9650007	13	5.9	14	76	11	58	42	1	19	37	1.59
9649930--9650009	40	2.0	40	90	0	124	41	1	21	36	1.61
9655280--9655322	7	5.9	7	91	2	59	16	0	0	83	0.64
9655280--9655314	8	4.4	8	96	0	61	14	0	0	85	0.59
9660608--9660745	70	2.0	70	91	0	222	35	7	18	37	1.81
9662284--9662326	10	4.9	8	94	5	50	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9662283--9662320	18	2.0	18	90	10	58	39	0	0	60	0.97
9662283--9662320	10	4.0	10	90	10	62	39	0	0	60	0.97
9667044--9667117	15	4.9	15	93	0	121	59	14	13	12	1.61
9671909--9671948	10	4.0	10	81	12	55	67	2	7	22	1.28
9673617--9673694	40	2.0	39	82	12	97	35	19	2	42	1.65
9673593--9673758	13	12.7	13	70	14	110	35	19	3	41	1.67
9673617--9673804	65	2.9	65	86	7	240	32	21	2	43	1.67
9677307--9677386	37	2.2	37	86	4	108	27	30	17	25	1.97
9677517--9677861	47	7.4	47	89	1	480	26	31	10	32	1.89
9677602--9677679	23	3.2	25	63	17	65	28	32	7	32	1.85
9679445--9679469	13	1.9	13	100	0	50	32	16	20	32	1.94
9682020--9682074	27	2.0	27	96	0	101	27	21	9	41	1.83
9693404--9693453	26	2.0	24	88	7	73	30	0	6	64	1.18
9706238--9706345	26	4.2	26	91	0	180	36	23	7	33	1.83
9713331--9713438	26	4.2	26	95	0	180	36	23	7	33	1.83
9715178--9715275	49	2.0	49	97	0	187	27	26	18	27	1.98
9719309--9719333	2	12.5	2	100	0	50	48	0	0	52	1.00
9719553--9719763	81	2.6	81	96	0	377	41	7	10	40	1.68
9725760--9725819	24	2.5	24	94	2	104	35	10	15	40	1.80
9727607--9727654	16	3.3	16	67	27	52	16	29	25	29	1.97
9731272--9731320	22	2.3	23	80	16	61	51	0	2	46	1.12
9733942--9734012	9	7.8	9	71	14	56	63	1	1	33	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9733925--9734008	18	4.5	19	77	15	61	61	2	1	34	1.16
9736419--9736480	32	1.9	32	90	6	99	50	6	3	40	1.44
9736669--9736840	95	1.8	95	80	12	210	48	1	3	45	1.29
9738143--9738345	108	1.9	109	87	3	302	32	20	24	22	1.98
9740122--9740205	6	14.2	6	78	14	86	79	0	15	4	0.89
9740123--9740204	17	4.6	17	77	12	85	81	0	13	4	0.84
9744777--9744885	52	2.1	53	94	1	193	37	8	16	37	1.79
9747022--9747065	15	2.7	16	82	13	54	2	0	22	75	0.92
9747023--9747065	16	2.6	17	82	10	54	2	0	23	74	0.93
9755859--9755910	16	3.1	17	78	10	54	61	1	1	34	1.18
9756601--9756673	19	3.8	19	88	0	119	38	9	13	38	1.78
9758062--9758130	25	2.7	25	82	8	77	26	21	27	24	1.99
9760187--9760287	45	2.2	45	85	0	130	24	15	16	42	1.88
9763401--9763480	28	2.9	28	81	7	76	60	0	6	33	1.22
9763738--9763840	26	3.9	26	81	7	93	60	2	7	29	1.39
9763758--9763842	25	3.3	25	70	11	73	63	3	5	27	1.34
9768253--9768290	20	1.9	20	84	10	51	42	13	23	21	1.88
9769621--9769763	71	2.0	71	94	0	250	44	9	18	26	1.81
9770245--9770426	46	4.0	46	89	1	249	39	14	24	21	1.91
9771190--9771241	20	2.6	20	90	0	77	21	36	32	9	1.86
9771229--9771288	23	2.6	23	100	0	120	13	26	33	26	1.93
9776349--9776384	12	3.0	12	87	0	54	41	5	27	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9776345--9776376	16	1.9	17	93	6	57	40	6	28	25	1.79
9779725--9779982	46	5.6	46	84	0	329	41	14	24	19	1.88
9779715--9779982	138	1.9	138	88	1	403	41	13	24	19	1.88
9783884--9784039	82	1.9	81	85	3	215	26	16	28	28	1.97
9783883--9784036	55	2.9	52	82	7	175	27	16	27	27	1.97
9783884--9784039	27	5.7	27	81	6	163	26	16	28	28	1.97
9783876--9784060	27	6.8	27	75	9	101	26	16	28	29	1.97
9783876--9784060	82	2.3	81	78	2	210	26	16	28	29	1.97
9790495--9790538	22	2.0	22	100	0	88	40	13	18	27	1.88
9791838--9791912	37	2.0	38	89	2	116	45	1	38	14	1.54
9794297--9794336	21	2.0	21	85	5	55	12	42	25	20	1.86
9799493--9799523	11	2.9	11	95	4	55	80	0	0	19	0.71
9819181--9820100	119	7.7	119	96	0	1651	33	16	18	31	1.93
9820053--9820318	83	3.2	83	85	1	329	33	19	18	28	1.95
9829005--9829153	77	1.9	77	98	0	289	48	12	21	17	1.79
9833308--9833780	119	4.0	119	93	1	770	33	16	18	31	1.94
9833705--9834382	83	8.0	83	85	6	869	32	19	18	29	1.96
9834215--9834395	82	2.2	83	80	1	193	33	18	19	29	1.95
9841477--9841534	24	2.4	24	77	16	66	32	0	18	48	1.49
9841732--9841829	40	2.5	40	83	4	121	28	19	24	27	1.98
9844468--9844533	32	2.1	32	97	0	123	39	18	15	27	1.90
9845766--9845810	21	2.1	22	87	4	65	37	4	0	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9845782--9845864	44	1.9	43	80	11	98	36	3	3	56	1.34
9845922--9845963	22	1.9	22	85	9	59	28	0	7	64	1.20
9848226--9848262	18	2.2	18	85	9	51	27	0	8	64	1.21
9848393--9848429	18	2.2	18	85	9	51	27	0	8	64	1.21
9848196--9848529	167	2.0	170	97	1	638	29	0	17	52	1.49
9848413--9848648	122	2.0	119	94	2	418	30	1	19	49	1.58
9848682--9848718	18	2.2	18	85	9	51	27	0	8	64	1.21
9848246--9848815	289	2.0	289	99	0	1122	29	1	18	51	1.53
9848699--9849199	103	4.8	104	87	7	607	29	0	15	53	1.49
9854244--9854274	6	5.0	6	96	4	53	80	0	0	19	0.71
9856186--9856211	13	2.0	13	100	0	52	61	0	0	38	0.96
9860848--9861634	277	2.8	274	89	4	1186	58	17	6	17	1.60
9861900--9861944	19	2.3	20	84	3	56	24	2	0	73	0.95
9861910--9861944	13	2.8	12	83	8	52	22	0	0	77	0.78
9864377--9864617	123	2.0	123	95	0	437	29	10	36	24	1.89
9866012--9866052	21	2.0	21	90	0	64	14	24	31	29	1.95
9869719--9869755	20	1.9	20	88	5	58	54	21	24	0	1.45
9872238--9872295	19	3.0	19	80	14	82	48	15	17	18	1.82
9872441--9872485	3	14.7	3	90	4	72	66	0	31	2	1.04
9872773--9872809	9	4.1	9	89	0	56	27	10	13	48	1.75
9872773--9872809	18	2.1	18	94	0	65	27	10	13	48	1.75
9876756--9876784	14	2.1	14	100	0	58	20	27	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9877217--9877629	103	4.0	103	99	0	817	47	12	5	34	1.65
9878374--9878505	27	4.9	27	82	5	90	25	31	23	20	1.98
9878884--9878928	23	1.9	25	86	13	69	40	4	6	48	1.49
9878881--9878932	23	2.3	20	79	20	59	42	3	5	48	1.45
9881408--9881547	27	5.2	28	88	5	175	35	22	24	18	1.96
9883168--9884031	26	33.2	26	99	0	1692	38	26	4	31	1.75
9888075--9888116	18	2.3	18	100	0	84	50	4	0	45	1.23
9917545--9917625	39	2.1	39	95	0	144	23	28	27	20	1.99
9917952--9918041	39	2.3	39	92	0	144	24	28	23	23	1.99
9924751--9924809	10	5.9	10	76	13	59	27	3	1	67	1.16

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