genome.fa.s12.2.7.7.80.10.50.1000.10.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  10  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)
2977166--2977443	93	3.0	92	84	7	337	29	11	10	48	1.73
2977565--2977733	90	1.9	90	87	4	252	35	11	15	37	1.84
2981574--2981681	16	6.1	16	71	19	65	41	0	0	57	1.05
2981610--2981662	26	2.0	26	85	7	72	41	1	0	56	1.10
2981600--2981670	10	7.5	10	80	15	80	42	1	0	56	1.08
2981595--2981689	36	2.5	39	87	12	130	41	1	0	57	1.05
2982918--2982971	22	2.5	22	82	11	58	64	3	11	20	1.40
2983949--2984082	66	2.0	66	100	0	268	23	19	14	42	1.88
2984251--2984329	36	2.2	36	93	0	131	7	24	13	54	1.65
2984294--2984319	13	2.0	13	100	0	52	0	30	7	61	1.24
2992777--2993054	138	2.0	138	96	0	511	26	10	15	47	1.77
3001440--3001474	18	1.9	18	88	0	52	42	17	8	31	1.79
3004073--3004122	26	1.9	26	84	8	66	30	14	10	46	1.77
3004227--3004286	29	2.1	29	87	0	84	23	21	23	31	1.98
3033385--3033413	11	2.5	12	88	11	51	55	6	13	24	1.63
3037634--3037664	2	15.5	2	100	0	62	48	0	0	51	1.00
3038513--3038822	110	2.8	108	87	3	442	32	20	17	30	1.95
3039010--3039058	18	2.8	17	75	9	53	69	4	4	22	1.23
3039678--3039756	3	26.3	3	79	5	88	64	5	1	29	1.22
3042724--3042753	15	1.9	16	93	6	53	66	0	6	26	1.16
3043783--3043818	18	2.0	17	89	10	54	55	5	0	38	1.23
3048448--3048571	43	2.7	46	80	9	137	20	29	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3048492--3048616	56	2.4	53	88	8	175	23	29	23	24	1.99
3048954--3049011	30	1.9	30	85	0	80	31	24	8	36	1.85
3050961--3050999	21	1.9	20	94	5	53	23	25	28	23	1.99
3056576--3056669	14	6.4	14	71	10	55	25	26	22	25	2.00
3056766--3056831	15	4.5	15	82	1	80	30	21	19	28	1.98
3056766--3056832	30	2.3	30	84	2	91	31	20	19	28	1.97
3059445--3059474	15	1.9	16	93	6	53	60	0	0	40	0.97
3059546--3059576	16	1.9	16	93	0	53	38	3	3	54	1.32
3065592--3065632	2	21.0	2	95	5	75	48	0	0	51	1.00
3065738--3065777	2	20.0	2	100	0	80	50	0	0	50	1.00
3066188--3066234	24	2.0	23	83	4	58	63	2	4	29	1.25
3081065--3081123	3	19.7	3	92	0	100	33	3	0	62	1.12
3081254--3081296	6	7.5	6	82	10	54	32	2	2	62	1.20
3081256--3081288	16	2.1	16	94	0	57	36	3	3	57	1.29
3089791--3089836	24	1.9	24	86	0	65	43	13	13	30	1.81
3093142--3093226	3	28.0	3	77	7	73	56	2	3	37	1.29
3095862--3095887	11	2.4	11	100	0	52	26	0	0	73	0.84
3097668--3097908	45	5.4	45	88	2	351	19	17	20	42	1.89
3101964--3101996	15	2.3	15	94	5	59	27	0	0	72	0.85
3102672--3102705	12	3.1	11	91	8	52	79	2	17	0	0.86
3104130--3104181	24	2.1	25	82	3	61	9	15	1	73	1.18
3106318--3106344	13	2.1	13	100	0	54	37	7	40	14	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115929--3115966	3	12.7	3	94	0	67	31	2	0	65	1.06
3117733--3117811	39	2.0	39	97	0	149	37	15	8	37	1.78
3118554--3118591	19	2.0	19	100	0	76	21	10	21	47	1.80
3130426--3130460	2	18.5	2	88	11	56	45	0	0	54	0.99
3133410--3133498	45	2.0	45	100	0	178	30	17	15	35	1.92
3138923--3138960	18	2.1	18	95	0	67	39	0	0	60	0.97
3143923--3144075	26	5.7	26	82	2	171	27	23	9	39	1.86
3143925--3144075	52	2.8	53	87	3	205	27	23	9	39	1.85
3144661--3144705	20	2.2	20	84	7	56	48	0	0	51	1.00
3144865--3144898	9	3.9	9	88	3	52	76	0	2	20	0.92
3150921--3150976	23	2.3	23	84	6	76	19	1	44	33	1.61
3150928--3150976	6	8.3	6	88	4	73	18	2	46	32	1.60
3151712--3151767	28	2.0	28	90	10	89	48	0	16	35	1.46
3154924--3155125	3	67.3	3	72	2	120	56	4	5	32	1.45
3158826--3158998	63	2.9	58	79	10	147	47	14	14	23	1.80
3169305--3169400	20	4.8	18	76	13	66	28	6	3	62	1.34
3169351--3169431	31	2.7	31	81	11	89	33	4	0	61	1.17
3173994--3174056	32	2.0	31	84	9	83	65	6	1	26	1.26
3182925--3183090	29	5.6	29	78	6	154	25	15	21	37	1.92
3182927--3183096	89	1.9	90	81	3	209	25	15	22	37	1.93
3185036--3185219	51	3.7	49	77	11	176	23	16	27	31	1.96
3185230--3185318	45	2.0	45	93	0	151	23	17	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3188755--3188835	6	13.0	6	78	7	72	17	62	0	19	1.32
3188763--3188813	18	2.8	18	93	0	84	13	66	0	19	1.24
3188779--3188830	15	3.5	15	79	10	61	19	65	0	15	1.27
3190157--3190219	12	5.2	12	84	0	72	20	65	1	12	1.35
3190160--3190209	9	5.6	9	87	0	73	20	68	2	10	1.29
3190157--3190214	15	3.9	15	86	0	62	20	67	1	10	1.29
3190300--3190335	18	2.0	18	100	0	72	33	38	0	27	1.57
3190301--3190345	18	2.5	18	88	0	54	28	46	0	24	1.53
3190349--3190397	3	16.3	3	84	0	53	26	63	2	8	1.34
3190411--3190446	18	2.0	18	94	0	63	25	38	8	27	1.84
3190366--3190555	99	1.9	99	82	0	236	26	49	5	18	1.70
3190580--3190614	3	11.7	3	93	0	61	28	68	0	2	1.04
3192200--3192241	9	4.7	9	80	11	50	30	0	2	66	1.04
3192199--3192243	18	2.4	19	88	3	65	31	0	2	66	1.04
3192199--3192243	10	4.8	10	81	15	51	31	0	2	66	1.04
3193052--3193096	19	2.4	18	82	17	56	22	0	4	73	1.01
3196314--3196378	21	3.1	21	78	8	69	15	61	3	20	1.47
3196442--3196500	21	2.8	20	77	7	55	18	61	3	16	1.49
3196429--3196473	18	2.5	18	81	0	54	17	62	6	13	1.52
3196490--3196540	24	2.1	24	89	7	77	27	47	7	17	1.75
3196496--3196530	18	1.9	18	94	0	61	28	42	8	20	1.81
3196563--3196613	15	3.2	15	76	15	57	21	64	3	9	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3199178--3199207	3	10.0	3	92	0	51	66	0	3	30	1.07
3200145--3200183	19	2.1	19	90	0	60	74	0	0	25	0.82
3200916--3201342	131	3.3	130	86	2	588	25	23	20	29	1.99
3200989--3201670	44	15.6	44	66	12	224	25	25	20	28	1.99
3201144--3201562	220	1.9	218	88	3	637	25	25	21	28	1.99
3201354--3201670	131	2.4	133	87	2	471	26	24	20	28	1.99
3207585--3208127	110	5.0	110	87	3	792	29	16	17	35	1.92
3207590--3208125	221	2.4	218	87	3	792	30	16	17	35	1.93
3209318--3209349	9	3.4	9	91	8	55	90	0	0	9	0.45
3209318--3209349	10	3.3	10	95	4	57	90	0	0	9	0.45
3211354--3211414	31	1.9	32	83	3	79	42	0	37	19	1.52
3211595--3211631	9	4.1	9	85	0	56	29	8	13	48	1.71
3213241--3213312	21	3.4	21	77	7	74	16	61	1	20	1.42
3213241--3213312	15	5.0	15	71	10	51	16	61	1	20	1.42
3219767--3219796	2	14.5	2	93	6	51	46	3	0	50	1.18
3222812--3222883	21	3.4	21	77	7	65	13	61	4	20	1.49
3222812--3222871	27	2.2	27	81	0	75	13	63	5	18	1.47
3222928--3222984	15	3.5	17	75	18	59	17	61	5	15	1.52
3223000--3223050	24	2.1	24	85	7	68	27	47	5	19	1.73
3223006--3223063	18	3.2	18	82	0	71	27	46	6	18	1.75
3222817--3223121	132	2.4	126	85	4	378	18	56	6	19	1.63
3223060--3223109	15	3.3	15	80	0	64	18	62	8	12	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223060--3223123	30	2.1	30	88	0	92	18	62	6	12	1.50
3223072--3223123	15	3.3	15	82	15	68	21	65	3	9	1.38
3223072--3223123	18	2.9	18	79	0	68	21	65	3	9	1.38
3227724--3227774	18	2.8	18	90	0	84	31	41	5	21	1.77
3227778--3227812	15	2.3	15	90	0	52	17	68	2	11	1.31
3227781--3227827	21	2.2	21	88	0	67	14	68	2	14	1.31
3227907--3227957	24	2.1	24	85	0	66	17	68	1	11	1.29
3227967--3228019	12	4.4	12	74	9	54	32	37	13	16	1.88
3227967--3228019	24	2.2	24	83	6	63	32	37	13	16	1.88
3232074--3232141	30	2.3	29	95	5	120	44	8	0	47	1.34

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