genome.fa.s12.2.7.7.80.10.50.1000.105.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  105  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)
30689493--30689520	2	14.0	2	100	0	56	50	0	0	50	1.00
30692881--30692910	3	10.0	3	92	0	51	30	3	0	66	1.07
30696275--30696337	21	3.1	21	68	13	60	19	26	1	52	1.55
30705035--30705090	22	2.6	21	83	8	60	62	3	0	33	1.12
30721655--30721807	27	5.7	26	83	5	146	38	3	3	54	1.33
30721655--30721798	13	10.8	13	79	11	121	38	3	2	54	1.32
30721671--30721807	40	3.4	40	82	9	154	38	2	3	54	1.33
30721655--30721798	67	2.1	67	96	0	261	38	3	2	54	1.32
30724221--30724252	9	3.6	9	95	0	55	34	18	34	12	1.89
30724215--30724246	12	2.7	12	95	0	55	34	18	34	12	1.89
30724461--30724552	30	3.1	30	95	0	166	38	8	22	30	1.85
30730620--30730686	32	2.1	32	94	0	116	25	26	7	40	1.82
30732150--30732182	16	2.0	17	88	5	50	6	12	18	63	1.48
30734503--30734535	7	4.6	7	92	7	57	66	3	0	30	1.06
30736693--30736830	69	2.0	69	100	0	276	39	13	11	36	1.80
30744660--30744698	20	2.0	20	85	10	53	48	7	12	30	1.69
30746667--30746700	15	2.3	15	90	5	52	70	0	0	29	0.87
30747033--30747084	24	2.2	24	92	0	86	38	1	7	51	1.42
30753150--30753188	19	2.0	19	85	5	51	46	7	12	33	1.71
30756578--30756659	3	27.3	3	84	0	110	34	1	1	63	1.10
30756752--30756794	22	2.0	22	86	9	61	32	4	0	62	1.15
30766596--30767112	44	11.9	44	70	12	266	29	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30766592--30766933	129	2.6	129	88	1	497	30	19	21	28	1.97
30766777--30767054	85	3.2	85	76	10	337	29	19	23	28	1.98
30766721--30767128	175	2.3	175	97	0	771	29	20	22	27	1.98
30766724--30767128	87	4.6	88	72	12	359	29	20	22	27	1.98
30768643--30768703	3	20.3	3	93	0	104	31	1	1	65	1.12
30773280--30773742	81	5.7	81	82	5	551	19	18	23	39	1.93
30773282--30773742	27	17.1	27	82	3	482	19	18	23	39	1.92
30781574--30781612	2	19.5	2	89	0	60	43	2	51	2	1.29
30781612--30781652	2	20.5	2	94	0	73	2	0	48	48	1.14
30784523--30784592	33	2.1	34	86	2	97	30	25	22	21	1.99
30784568--30784645	28	2.8	28	98	0	147	30	24	21	23	1.99
30784991--30785032	13	3.2	13	81	18	59	47	9	7	35	1.64
30789118--30789155	20	1.9	20	89	10	60	42	0	18	39	1.50
30791462--30791513	24	2.2	24	92	0	86	38	1	7	51	1.42
30797508--30797621	59	1.9	59	94	0	201	30	10	25	33	1.90
30804747--30804800	28	2.0	28	92	3	92	29	25	24	20	1.99
30806004--30806042	2	19.5	2	89	0	60	43	2	51	2	1.29
30806042--30806082	2	20.5	2	100	0	82	0	0	51	48	1.00
30808953--30809049	28	3.1	33	80	12	89	29	25	22	21	1.99
30808995--30809068	28	2.6	28	97	0	139	29	25	21	22	1.99
30815898--30815931	15	2.3	15	90	5	52	70	0	0	29	0.87
30816267--30816318	24	2.2	24	92	0	86	38	1	7	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30820172--30820298	49	2.6	49	81	4	152	26	15	25	32	1.96
30822851--30823136	101	2.8	101	93	1	475	23	17	27	31	1.97
30822851--30823134	51	5.6	50	78	10	274	23	17	27	30	1.97
30823058--30823138	26	3.2	26	66	22	71	22	14	28	34	1.94
30824200--30824268	33	2.1	33	100	0	138	30	5	21	42	1.76
30825167--30825307	3	47.3	3	79	4	124	57	4	4	32	1.42
30827287--30827390	52	2.0	52	98	0	199	43	22	13	21	1.87
30831102--30831364	144	1.8	143	93	0	382	34	22	9	32	1.87
30833591--30833618	13	2.2	13	100	0	56	39	7	39	14	1.73
30835748--30835791	23	1.9	23	85	0	61	31	13	9	45	1.75
30839537--30839567	16	2.0	15	93	6	53	80	0	0	19	0.71
30839537--30839585	21	2.3	22	85	3	64	73	6	0	20	1.04
30854407--30854828	44	9.5	44	77	4	339	34	18	19	27	1.95
30854407--30854803	89	4.5	89	78	2	379	35	17	19	27	1.95
30856371--30856395	12	2.1	12	100	0	50	24	0	0	76	0.80
30856582--30856639	28	2.1	28	96	0	107	20	15	6	56	1.62
30858981--30859029	10	4.7	11	85	10	52	28	2	0	69	1.00
30861923--30862037	46	2.5	47	75	12	114	23	21	20	33	1.97
30862151--30862194	23	1.9	23	86	9	63	27	9	13	50	1.72
30865381--30865423	21	2.0	21	82	8	52	41	4	2	51	1.35
30867896--30867926	5	6.2	5	100	0	62	0	19	0	80	0.71
30870058--30870189	60	2.2	59	87	1	183	41	9	25	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30876452--30876585	61	2.2	61	85	6	191	29	14	9	47	1.76
30883165--30883197	15	2.3	15	89	5	50	39	3	0	57	1.14
30887476--30887519	22	1.9	24	86	9	65	63	4	15	15	1.46
30901986--30902025	20	2.0	20	90	0	62	50	12	10	27	1.72
30904959--30904988	2	15.0	2	100	0	60	50	0	0	50	1.00
30911623--30911666	22	2.0	23	86	4	63	40	2	2	54	1.25
30911969--30912241	136	2.0	135	94	2	476	40	19	13	26	1.89
30915445--30915479	18	1.9	18	88	0	52	31	14	25	28	1.95
30917575--30917604	3	10.0	3	100	0	60	33	33	0	33	1.58
30922155--30922203	21	2.3	20	82	6	53	20	4	2	73	1.10
30923986--30924011	6	4.3	6	100	0	52	15	0	15	69	1.20
30928314--30928392	33	2.5	33	87	6	110	58	8	8	24	1.57
30934225--30934270	6	7.7	6	97	0	83	84	13	0	2	0.71
30936831--30936887	30	1.9	30	82	13	73	47	3	0	49	1.18
30937067--30937115	13	3.7	13	78	5	53	40	18	0	40	1.50
30937691--30937780	21	4.4	20	65	18	60	25	8	15	50	1.73
30937686--30937803	61	1.9	61	91	3	193	24	9	15	50	1.73
30942019--30942054	18	1.9	19	88	5	56	66	2	5	25	1.27
30944117--30944141	12	2.1	12	100	0	50	40	0	44	16	1.47
30949914--30949950	16	2.3	16	95	0	65	37	5	32	24	1.78
30949932--30950024	44	2.1	46	93	4	163	27	4	31	36	1.76
30949932--30950040	39	2.6	42	85	10	134	29	3	31	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30955593--30955740	39	3.7	40	84	9	194	60	1	2	35	1.19
30955629--30955702	9	8.0	9	72	15	53	60	1	1	36	1.13
30960231--30960261	2	15.5	2	100	0	62	51	0	0	48	1.00
30960305--30960345	2	20.0	2	90	5	64	46	2	0	51	1.14
30960402--30960465	6	10.8	6	85	9	53	75	1	4	18	1.06
30960402--30960454	5	9.4	5	86	13	52	73	1	5	18	1.12
30962042--30962356	130	2.4	131	88	5	478	24	25	19	29	1.98
30962442--30962635	46	4.3	46	66	10	130	31	23	19	26	1.98
30962327--30962708	134	2.9	134	94	0	665	28	22	19	29	1.98
30962473--30962665	45	4.3	45	64	11	117	29	22	19	28	1.98
30962942--30963037	46	2.1	46	84	3	122	32	27	17	22	1.97
30963104--30963282	42	4.3	42	89	5	292	20	20	24	34	1.97
30963104--30963256	82	1.9	82	98	0	297	22	20	25	32	1.98
30963749--30963852	31	3.2	31	69	24	95	25	16	7	50	1.72
30974611--30974891	84	3.4	81	89	4	411	34	6	9	49	1.60
30974611--30974891	83	3.4	83	90	3	417	34	6	9	49	1.60
30984443--30984479	19	1.9	19	94	0	65	35	0	0	64	0.94
30984444--30984486	20	2.2	19	87	4	59	34	0	2	62	1.08
30995283--30995452	9	18.2	9	68	17	64	31	5	1	61	1.29
30995424--30995454	10	3.2	10	95	4	55	32	0	0	67	0.91
30995875--30996188	88	3.6	87	82	7	350	32	10	15	41	1.81
30995875--30996224	88	4.0	87	82	8	327	31	10	16	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30996367--30996399	12	2.8	12	86	4	50	6	18	0	75	1.00
30996876--30996915	20	2.0	21	90	5	64	30	2	0	67	1.04
30996881--30996935	27	2.0	28	89	3	85	29	1	0	69	0.99
30997440--30997499	21	2.8	22	81	18	65	45	0	0	55	0.99
30997440--30997507	24	3.0	23	77	14	63	42	0	0	57	0.98
30999311--30999348	14	2.7	14	100	0	76	65	7	0	26	1.19
30999611--30999662	27	1.9	27	84	0	68	51	11	7	28	1.65
31007120--31007399	103	2.7	103	96	0	515	33	17	17	31	1.93
31016349--31016554	88	2.4	88	85	5	258	38	16	10	35	1.82
31016698--31016797	9	11.2	9	70	20	52	63	2	7	28	1.32

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