genome.fa.s7.2.7.7.80.10.50.1000.26.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  26  of  204  ( 24458 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)
9513165--9513215	3	17.3	3	89	4	77	66	0	1	31	1.03
9514478--9514538	24	2.5	23	80	15	61	49	4	0	45	1.23
9514486--9514565	35	2.3	35	85	8	103	50	5	0	45	1.23
9516313--9516381	23	3.0	23	93	0	111	55	20	2	21	1.57
9516902--9516962	30	2.0	30	81	9	70	22	9	18	49	1.77
9526217--9526274	3	19.3	3	100	0	116	32	0	0	67	0.91
9527589--9527636	11	4.3	11	78	5	60	37	6	0	56	1.25
9527599--9527650	23	2.3	23	96	0	95	32	3	0	63	1.12
9527610--9527704	40	2.3	43	85	9	133	34	2	0	63	1.07
9536532--9536556	12	2.1	12	100	0	50	36	0	32	32	1.58
9537720--9537762	13	3.3	13	84	9	52	34	4	27	32	1.78
9541670--9541765	3	32.3	3	83	10	126	62	1	2	34	1.14
9542459--9542483	13	1.9	13	100	0	50	88	0	0	12	0.53
9548926--9549020	32	3.0	32	95	0	163	22	15	15	46	1.84
9549888--9550746	301	2.9	292	80	8	899	41	10	14	34	1.79
9552232--9552337	41	2.6	41	92	0	176	30	25	21	22	1.99
9556325--9556403	22	3.4	23	80	15	92	36	20	26	16	1.93
9556369--9556422	25	2.2	25	82	0	63	38	24	22	14	1.91
9595894--9596071	50	3.2	56	83	11	233	33	12	25	28	1.93
9600243--9600357	60	1.9	60	85	3	160	42	3	9	44	1.54
9618115--9618294	81	2.2	81	87	7	283	41	5	13	40	1.66
9619945--9619969	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9623538--9623649	4	28.0	4	100	0	224	50	25	0	25	1.50
9625788--9625881	45	2.1	45	91	0	152	30	23	19	26	1.98
9625883--9626021	49	2.8	51	81	8	185	32	28	16	23	1.96
9633698--9633847	42	3.5	42	80	9	171	30	26	18	24	1.98
9633689--9633847	43	3.7	42	80	7	178	31	27	18	23	1.97
9634922--9634946	13	1.9	13	100	0	50	40	24	4	32	1.73
9635379--9635453	22	3.4	22	84	0	105	28	14	26	30	1.95
9637482--9637571	25	3.6	25	87	0	126	30	20	30	20	1.97
9640058--9640402	25	14.6	25	73	15	272	44	17	13	24	1.84
9640062--9640237	47	3.7	46	84	5	210	43	18	13	24	1.86
9640062--9640409	72	4.9	70	80	11	333	44	17	12	24	1.84
9640082--9640409	47	7.0	47	82	7	309	45	17	12	24	1.83
9641352--9641450	28	3.6	27	78	11	103	29	27	12	31	1.92
9651537--9651675	33	4.2	32	68	14	93	30	15	23	30	1.95
9651695--9651745	24	2.1	24	89	7	77	52	5	19	21	1.66
9655517--9655550	6	5.7	6	96	0	59	14	2	0	82	0.79
9659828--9659975	57	2.5	59	86	9	203	30	22	25	21	1.99
9660098--9660228	67	2.0	67	93	0	226	24	17	31	26	1.97
9660945--9660977	2	16.5	2	100	0	66	48	0	0	51	1.00
9667984--9668030	17	2.5	20	83	13	55	38	2	2	57	1.23
9674976--9675124	46	3.2	46	96	0	262	32	16	18	32	1.93
9675726--9676061	46	7.6	46	89	7	491	27	22	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9675953--9676025	36	2.0	36	94	0	128	28	20	13	36	1.91
9675907--9676061	82	1.9	82	95	0	283	29	21	12	35	1.91
9678483--9678604	46	2.7	46	94	2	212	33	16	22	27	1.95
9685493--9685531	17	2.4	16	86	4	51	17	5	2	74	1.12
9710061--9710097	19	1.9	19	100	0	74	32	2	0	64	1.07
9710060--9710104	19	2.3	19	88	3	72	33	2	0	64	1.06
9711514--9712188	46	15.6	46	89	6	867	30	20	14	34	1.93
9711923--9712147	36	6.0	36	84	10	288	30	19	12	37	1.88
9711877--9712188	82	3.9	82	86	8	428	30	20	12	36	1.89
9732258--9732296	18	2.2	17	86	13	53	46	20	0	33	1.51
9735432--9735504	22	3.3	22	92	0	110	27	26	12	34	1.92
9741006--9741052	22	2.2	21	77	7	51	31	10	4	53	1.55
9745534--9745596	11	6.1	10	74	9	56	63	1	3	31	1.19
9745540--9745606	31	2.2	31	84	7	84	65	1	1	31	1.10
9745745--9745816	19	3.7	18	74	20	65	62	0	1	36	1.04
9745747--9745816	20	3.5	20	74	18	67	61	0	1	37	1.05
9745749--9745821	21	3.7	20	73	14	62	60	1	1	36	1.14
9759113--9759391	125	2.2	124	89	1	441	29	17	23	30	1.97
9763904--9763993	45	2.0	45	95	0	162	20	31	8	40	1.83
9767049--9767115	34	1.9	35	87	3	100	44	13	8	32	1.75
9769970--9770010	21	2.0	21	85	9	57	46	24	14	14	1.82
9773653--9773693	22	1.9	21	90	5	64	48	4	0	46	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9779712--9779744	12	3.0	11	91	8	50	36	0	3	60	1.12
9781553--9781715	49	3.4	49	89	1	240	22	14	39	23	1.91
9782051--9782103	18	3.2	18	66	33	55	32	7	18	41	1.79
9782050--9782113	31	2.1	31	100	0	128	32	6	18	42	1.76
9782057--9782110	18	3.3	18	67	32	57	31	7	20	40	1.80
9787002--9787027	5	5.2	5	100	0	52	42	19	19	19	1.90
9788054--9788090	9	4.1	9	92	0	65	29	10	13	45	1.77
9788144--9788174	9	3.4	9	90	0	53	38	22	12	25	1.90
9788882--9788930	25	2.0	25	84	8	64	24	22	18	34	1.96
9803825--9803889	27	2.5	27	92	5	107	46	4	0	49	1.22
9804542--9804613	19	3.2	23	65	31	64	41	15	0	43	1.46
9804528--9804615	45	2.0	44	97	2	167	39	15	0	44	1.47
9804624--9804661	18	2.1	18	90	0	58	47	0	13	39	1.42
9807624--9807662	18	2.2	18	85	0	51	53	2	10	33	1.48
9807909--9807948	13	3.0	14	82	17	50	72	0	5	22	1.04
9808133--9808185	27	2.0	27	88	3	81	60	9	11	18	1.57
9809347--9809477	53	2.6	52	81	6	142	35	16	19	27	1.94
9809840--9810042	90	2.3	90	81	9	243	28	6	13	51	1.65
9811978--9812009	17	2.0	17	88	11	50	40	0	0	59	0.97
9812093--9812128	14	2.5	15	90	4	56	33	8	0	58	1.28
9812338--9812373	19	2.0	18	89	10	56	47	11	8	33	1.69
9814431--9814470	16	2.5	16	91	0	62	47	2	7	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9814543--9814586	9	5.1	9	83	10	65	34	0	9	56	1.31
9814540--9814577	16	2.4	16	90	0	67	36	0	7	55	1.29
9815625--9815665	18	2.4	17	87	4	55	60	4	7	26	1.43
9815607--9815669	17	3.5	17	80	10	72	53	7	7	30	1.58
9817036--9817106	30	2.4	29	84	13	85	59	5	0	35	1.21
9819151--9819693	126	4.3	126	92	1	865	26	21	19	32	1.97
9819722--9819929	96	2.2	97	82	4	260	39	20	2	37	1.68
9828829--9828927	10	10.0	10	74	18	73	51	1	4	43	1.27
9828805--9828920	10	12.0	9	71	19	58	54	0	2	42	1.20
9829187--9829236	20	2.5	20	87	12	68	34	0	2	64	1.05
9829201--9829262	10	6.5	10	70	17	51	38	1	1	58	1.18
9829249--9829305	20	2.8	20	79	12	62	38	3	1	56	1.27
9829277--9829346	34	2.0	34	83	8	88	34	4	1	60	1.25
9829259--9829338	20	4.2	20	65	20	55	33	5	1	60	1.27
9831403--9831449	24	1.9	25	86	4	69	12	17	27	42	1.85
9831508--9831567	25	2.4	25	80	2	66	20	13	26	40	1.89
9838967--9839004	18	2.1	19	85	5	51	36	5	21	36	1.76
9848900--9848931	12	2.7	12	100	0	64	43	0	0	56	0.99
9850992--9851538	108	5.1	107	87	3	766	34	18	17	30	1.94
9850992--9851538	215	2.6	215	91	3	874	34	18	17	30	1.94
9851929--9851979	3	17.0	3	95	0	93	64	0	1	33	1.05
9851933--9852021	6	15.0	6	95	1	63	49	0	16	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9851972--9852016	3	15.0	3	95	0	81	35	0	31	33	1.58
9853314--9853393	37	2.1	38	88	2	117	25	17	22	35	1.95
9855701--9855801	40	2.5	40	81	10	116	43	22	16	16	1.87
9856268--9856297	15	2.1	15	93	6	53	30	0	36	33	1.58
9856430--9856485	20	2.7	21	73	15	53	16	1	51	30	1.54
9856429--9856490	7	8.9	7	73	5	54	16	1	51	30	1.54
9860879--9861039	87	1.9	87	82	2	207	28	16	22	32	1.96
9860907--9861079	87	2.0	88	80	3	197	30	13	23	32	1.94
9863631--9863810	93	1.9	93	95	0	324	38	11	13	36	1.81
9865332--9865363	2	16.0	2	93	0	55	53	0	46	0	1.00

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