genome.fa.s12.2.7.7.80.10.50.1000.41.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  41  of  120  ( 14336 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)
11098082--11098349	64	4.2	64	81	6	303	32	22	24	20	1.98
11098090--11098350	127	2.1	127	86	4	366	32	21	24	21	1.98
11100039--11100129	23	4.0	23	91	0	146	18	20	27	32	1.96
11100040--11100136	46	2.1	46	96	0	176	20	20	27	30	1.98
11107144--11107223	27	3.0	27	86	0	106	23	25	11	40	1.88
11107156--11107251	27	3.6	27	78	4	77	25	22	7	44	1.78
11107380--11107447	27	2.5	28	83	7	86	26	25	16	32	1.96
11110139--11110164	10	2.6	10	100	0	52	34	0	0	65	0.93
11110888--11110940	2	26.5	2	96	0	97	47	1	0	50	1.12
11115343--11115384	21	2.0	21	100	0	84	33	4	9	52	1.55
11121635--11121678	22	1.9	24	86	9	65	40	13	2	43	1.57
11124262--11124299	20	1.9	20	88	0	58	55	10	13	21	1.67
11128084--11128126	19	2.2	20	87	4	61	27	18	18	34	1.95
11129332--11129375	22	2.0	22	82	8	54	31	0	9	59	1.29
11130076--11130116	13	2.9	15	75	14	50	46	43	0	9	1.36
11132208--11132293	40	2.2	40	93	0	154	33	8	17	40	1.79
11138829--11138861	11	2.9	12	86	13	52	66	0	0	33	0.92
11148042--11148092	18	2.7	19	90	6	77	21	25	0	52	1.47
11152777--11152802	11	2.4	11	100	0	52	26	0	0	73	0.84
11157277--11157318	22	1.9	22	90	9	68	26	7	2	64	1.32
11159150--11159174	5	5.0	5	100	0	50	40	0	0	60	0.97
11164624--11164711	30	3.0	30	77	11	92	57	5	0	36	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11170870--11170908	18	2.2	17	86	13	53	33	0	20	46	1.51
11171013--11171041	8	3.6	8	100	0	58	24	13	27	34	1.93
11171128--11171203	23	3.3	23	96	0	143	21	21	26	31	1.98
11192307--11192420	34	3.4	34	66	22	94	38	18	20	22	1.93
11192285--11192739	68	6.7	68	81	2	502	36	16	21	25	1.94
11197584--11197623	14	2.9	14	88	0	62	32	7	15	45	1.74
11197592--11197658	34	1.9	35	87	3	100	31	8	11	47	1.71
11197607--11197646	20	2.0	20	95	0	71	27	10	10	52	1.66
11197737--11197846	48	2.3	48	96	0	202	38	3	0	57	1.23
11200383--11200410	12	2.3	12	100	0	56	67	7	0	25	1.15
11202205--11202244	7	5.4	7	85	11	53	17	0	2	80	0.83
11202205--11202244	15	2.7	14	85	11	53	17	0	2	80	0.83
11202704--11202739	8	4.4	8	86	6	54	83	0	2	13	0.76
11202707--11202739	17	1.9	17	93	0	57	81	0	3	15	0.80
11202818--11202853	18	2.0	18	94	0	63	77	0	8	13	0.98
11206128--11206197	30	2.4	30	80	7	81	50	5	2	41	1.41
11207445--11207603	24	6.2	25	72	17	105	46	1	1	50	1.20
11208216--11208265	19	2.6	20	87	12	70	62	2	4	32	1.25
11211372--11211992	196	3.2	194	84	6	753	42	10	15	31	1.81
11214409--11214445	18	2.1	18	94	0	65	40	16	27	16	1.89
11224627--11224725	41	2.4	42	87	1	146	26	28	22	23	1.99
11227251--11227296	19	2.3	20	81	3	58	32	10	4	52	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11234936--11235107	45	3.8	45	85	3	204	37	29	12	20	1.89
11242513--11242559	19	2.4	19	86	10	60	42	0	6	51	1.27
11242915--11242962	19	2.5	19	86	3	60	22	6	2	68	1.23
11242915--11242986	10	7.4	10	75	12	53	25	5	1	68	1.20
11242913--11243001	10	8.8	10	67	18	51	23	5	2	68	1.22
11242948--11243006	20	2.9	22	85	9	72	22	6	1	69	1.21
11243074--11243147	27	2.7	27	80	10	80	31	2	4	62	1.28
11244825--11244877	22	2.5	21	82	8	63	26	0	9	64	1.24
11257608--11257661	26	2.0	26	82	3	63	20	11	9	59	1.59
11258577--11258612	10	3.6	10	92	7	56	72	0	2	25	0.98
11260663--11260718	20	2.8	20	75	0	58	35	14	12	37	1.84
11261552--11261625	28	2.6	28	83	10	96	40	21	18	18	1.91
11261578--11261633	28	2.0	28	86	6	78	41	23	17	17	1.90
11268085--11268134	25	2.0	25	84	0	64	44	18	12	26	1.84
11272726--11272757	16	2.0	17	88	11	50	43	12	15	28	1.83
11279873--11279907	17	2.1	17	89	10	54	65	5	5	22	1.36
11280058--11280093	18	2.0	18	100	0	72	16	27	22	33	1.95
11284199--11284273	23	3.2	24	68	21	77	28	4	37	30	1.75
11284177--11284274	46	2.1	46	100	0	196	27	4	37	30	1.75
11284177--11284254	23	3.4	23	69	20	74	29	3	35	30	1.75
11287986--11288032	24	2.0	24	83	8	60	42	8	12	36	1.74
11297162--11297206	3	15.0	3	80	0	54	0	57	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11297166--11297208	6	7.2	6	94	0	68	0	53	0	46	1.00
11297162--11297208	18	2.6	18	89	0	76	0	55	0	44	0.99
11303164--11303200	16	2.3	16	100	0	74	37	5	35	21	1.77
11303180--11303270	46	2.0	46	93	4	159	26	4	30	38	1.76
11303180--11303287	46	2.5	44	85	11	145	28	3	31	36	1.75
11303501--11303559	23	2.6	22	78	5	55	57	5	0	37	1.21
11303430--11303560	18	7.1	18	69	16	79	54	3	1	39	1.28
11303607--11303671	33	2.0	33	81	0	76	47	3	0	49	1.17
11308624--11308696	35	2.1	35	89	0	110	41	8	2	47	1.47
11314102--11314214	3	37.7	3	94	3	201	66	0	32	0	0.98
11317564--11317736	9	18.0	9	69	18	75	57	4	4	34	1.38
11318929--11318999	24	3.0	24	85	0	106	49	16	15	18	1.80
11322128--11322209	26	3.2	26	71	20	64	28	2	3	65	1.22
11322127--11322209	9	9.6	9	70	13	50	27	2	3	66	1.21
11322184--11322221	18	2.0	20	85	10	53	23	2	2	71	1.12
11324312--11324397	38	2.2	40	89	4	131	52	5	1	40	1.33
11327956--11328230	102	2.7	102	84	2	356	19	32	16	32	1.94
11329264--11329306	17	2.4	17	84	7	59	13	4	4	76	1.10
11329975--11330107	3	44.7	3	75	15	98	30	5	2	61	1.30
11329953--11330014	21	2.7	24	82	7	76	35	1	4	58	1.29
11330444--11330479	2	18.0	2	94	0	54	44	0	5	50	1.25
11335959--11336074	41	3.1	35	68	20	90	32	0	4	62	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11346455--11346488	17	1.9	17	88	5	50	38	14	0	47	1.45
11352482--11352555	38	1.9	38	94	0	130	31	27	16	25	1.96
11354403--11354449	20	2.3	20	96	0	85	51	6	14	27	1.67
11355438--11355478	18	2.3	18	82	0	55	80	2	9	7	0.99
11357303--11357336	4	8.2	4	93	6	59	50	0	0	50	1.00
11357435--11357472	16	2.2	18	86	9	53	28	0	7	63	1.23
11359436--11359484	22	2.2	23	82	10	57	71	4	2	22	1.13
11361000--11361158	44	3.7	41	73	9	122	27	20	23	28	1.99
11361196--11362025	50	16.7	50	67	3	312	25	20	20	32	1.97
11361174--11362033	100	8.6	100	81	4	812	25	20	21	32	1.98
11361174--11362015	397	2.1	399	86	1	1163	25	20	21	32	1.98
11363281--11363329	5	10.0	5	86	8	66	2	18	0	79	0.83
11366444--11366495	19	2.7	20	82	5	63	46	11	17	25	1.81
11370713--11370746	3	11.3	3	93	0	59	64	0	0	35	0.94
11372046--11372214	30	5.8	28	72	15	119	35	18	2	42	1.66
11372046--11372214	59	2.9	59	75	14	168	35	18	2	42	1.66
11372669--11372709	15	2.6	15	88	7	55	73	0	26	0	0.84
11372683--11372720	10	3.8	10	82	10	51	78	0	21	0	0.74
11372674--11372718	19	2.3	20	92	3	74	75	0	24	0	0.80
11372873--11372913	14	3.1	14	79	13	50	26	41	21	9	1.84
11372962--11373009	21	2.4	19	83	10	60	77	0	22	0	0.78
11373121--11373168	3	16.0	3	87	8	71	68	0	31	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11373122--11373181	12	4.8	12	82	13	59	75	0	25	0	0.81
11373317--11373355	9	4.3	9	87	9	53	79	0	20	0	0.73
11373312--11373358	15	3.2	15	82	14	62	78	0	21	0	0.75
11373483--11373559	35	2.2	35	79	9	84	22	6	7	63	1.44
11373562--11373595	10	3.5	10	84	8	52	29	2	0	67	1.05
11373501--11373578	34	2.3	32	85	14	95	23	6	7	62	1.45
11373822--11373861	18	2.2	18	86	0	53	35	7	10	47	1.65
11376708--11376759	25	2.1	25	100	0	104	42	15	19	23	1.89
11381306--11381348	11	3.7	11	85	11	52	81	9	9	0	0.88
11382190--11384128	79	24.7	76	77	10	1660	28	16	20	34	1.94

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