genome.fa.s10.2.7.7.80.10.50.1000.11.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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   

This is table  11  of  136  ( 16211 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)
3217404--3217450	24	2.0	24	86	0	67	53	0	8	38	1.32
3227505--3227547	2	21.5	2	100	0	86	51	0	48	0	1.00
3227846--3227882	2	18.5	2	100	0	74	0	0	48	51	1.00
3228423--3228471	22	2.3	22	96	3	91	32	16	6	44	1.72
3232602--3232654	23	2.3	23	96	0	97	28	26	20	24	1.99
3234709--3234733	2	12.5	2	100	0	50	52	0	0	48	1.00
3235426--3235567	75	1.9	75	81	11	175	38	18	20	22	1.93
3244770--3244855	43	2.0	43	88	4	129	23	20	2	53	1.57
3244813--3244850	18	2.2	18	86	9	53	15	23	2	57	1.51
3245775--3245843	33	2.1	33	100	0	138	43	21	2	31	1.67
3248810--3248872	30	2.1	30	100	0	126	20	12	28	38	1.89
3253582--3253709	69	1.9	68	88	1	193	49	4	3	42	1.39
3253640--3253734	37	2.5	37	83	11	113	51	5	4	38	1.44
3262067--3262106	17	2.3	18	91	4	64	45	2	5	47	1.38
3272913--3272937	13	1.9	13	100	0	50	28	32	0	40	1.57
3276806--3276836	5	6.2	5	100	0	62	38	0	22	38	1.54
3278890--3279242	176	2.0	179	88	3	534	36	14	16	33	1.88
3283430--3283525	46	2.1	46	90	0	147	27	11	20	40	1.87
3286752--3286811	31	1.9	31	83	6	77	35	20	13	31	1.91
3286914--3286957	20	2.2	20	84	8	54	25	2	4	68	1.20
3301259--3301333	13	6.1	13	80	12	86	40	21	8	30	1.82
3301248--3301323	26	3.1	26	72	22	74	39	19	5	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3306218--3306243	12	2.2	12	100	0	52	34	15	26	23	1.94
3311561--3312235	272	2.5	272	93	2	1118	39	15	16	29	1.89
3314333--3314359	6	4.5	6	100	0	54	18	51	14	14	1.76
3316228--3316266	19	2.1	19	90	0	60	66	7	7	17	1.40
3318767--3318807	13	3.2	13	83	13	57	41	0	24	34	1.55
3324445--3324533	44	2.0	44	93	0	151	42	13	19	24	1.87
3328574--3328627	21	2.7	21	80	11	60	40	1	31	25	1.66
3341587--3342002	205	2.0	205	95	0	751	31	16	12	39	1.86
3343658--3343699	23	1.9	21	85	9	57	21	4	4	69	1.26
3345008--3345154	27	5.4	27	80	1	134	27	19	17	36	1.94
3349474--3349596	25	5.0	25	80	7	119	31	17	24	26	1.97
3349474--3349596	50	2.5	49	80	5	131	31	17	24	26	1.97
3350411--3350451	22	1.9	22	85	5	57	29	9	0	60	1.28
3357293--3357333	21	2.0	21	90	0	64	29	34	19	17	1.94
3359911--3359953	5	8.2	5	80	10	50	55	4	0	39	1.20
3364620--3364864	124	2.0	124	96	0	454	40	12	10	36	1.77
3365249--3365290	2	21.0	2	95	0	75	0	47	0	52	1.00
3372635--3372674	14	2.9	14	84	0	53	32	7	17	42	1.77
3372643--3372709	35	1.9	35	87	3	100	31	10	13	44	1.77
3372658--3372697	20	2.0	20	85	0	53	27	12	12	47	1.77
3372699--3372775	33	2.4	32	82	8	93	27	9	16	46	1.77
3377712--3377736	8	3.1	8	100	0	50	60	24	16	0	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378329--3378401	24	3.0	24	89	0	119	36	4	46	12	1.61
3387659--3387686	9	3.1	9	100	0	56	57	10	0	32	1.33
3387629--3387770	68	2.1	66	94	2	248	45	9	4	40	1.58
3387759--3387800	16	2.6	16	92	0	66	42	7	2	47	1.43
3387774--3387835	23	2.7	23	82	2	72	48	1	1	48	1.21
3387629--3387792	68	2.5	66	86	10	216	45	9	4	40	1.55
3391379--3391417	15	2.7	15	88	7	55	46	23	0	30	1.53
3393215--3393258	20	2.3	19	88	4	61	43	13	2	40	1.57
3405665--3405762	49	2.1	46	86	7	135	55	2	4	38	1.31
3406386--3406411	11	2.4	11	100	0	52	38	7	0	53	1.30
3421041--3421710	210	3.2	209	86	2	862	36	16	15	31	1.91
3421364--3422058	348	2.0	348	81	3	819	35	17	15	31	1.91
3421744--3422161	210	2.0	210	79	4	450	35	18	14	31	1.91
3427861--3427902	10	4.3	10	81	6	50	35	7	2	54	1.41
3427861--3427902	19	2.2	20	86	4	59	35	7	2	54	1.41
3429226--3429255	8	3.6	8	95	4	51	40	0	56	3	1.16
3431937--3431998	28	2.2	28	85	0	79	32	16	9	41	1.80
3432161--3432191	16	1.9	16	93	0	53	29	25	22	22	1.99
3432533--3432577	23	2.0	23	86	4	65	40	2	17	40	1.62
3434284--3434815	264	2.0	264	98	0	1037	32	16	24	25	1.96
3437918--3437972	22	2.5	23	88	5	78	34	3	18	43	1.67
3439120--3439162	16	2.6	17	82	17	56	23	9	2	65	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3440372--3440431	28	2.1	28	84	0	75	41	8	16	33	1.78
3443488--3443852	191	1.9	191	85	1	507	21	15	18	43	1.87
3450537--3450573	19	1.9	19	94	0	65	40	0	16	43	1.48
3454426--3454465	19	2.2	19	95	4	73	37	5	12	45	1.64
3466226--3466293	5	13.4	5	77	20	70	57	0	0	42	0.98
3466226--3466293	12	6.7	10	79	17	70	57	0	0	42	0.98
3466225--3466298	31	2.4	29	82	10	85	56	1	0	41	1.07
3466227--3466303	14	5.4	13	75	14	55	58	2	0	38	1.12
3467634--3467708	23	3.3	23	90	0	114	17	20	29	33	1.95
3471791--3472309	40	12.9	40	80	1	527	21	26	17	35	1.95
3474374--3474420	11	4.3	12	75	20	50	51	0	6	42	1.27
3474378--3474418	21	2.0	20	85	4	55	48	0	7	43	1.30
3474996--3475020	13	1.9	13	100	0	50	40	12	0	48	1.40
3476102--3476132	16	1.9	16	93	0	53	74	9	6	9	1.23
3478875--3478945	21	3.5	21	66	22	53	47	1	0	50	1.09
3505963--3505992	12	2.6	12	94	5	53	30	0	0	70	0.88
3505980--3506021	22	1.9	22	90	0	66	47	0	0	52	1.00
3509945--3509982	19	2.0	19	85	10	51	36	7	5	50	1.54
3515956--3516040	44	1.9	44	95	0	152	40	12	3	43	1.60
3517138--3517164	14	1.9	14	100	0	54	44	3	14	37	1.63
3517419--3517505	31	2.9	30	88	6	122	36	2	0	60	1.09
3517406--3517532	41	3.1	41	89	5	202	39	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3519708--3519754	5	9.2	5	80	13	51	23	25	14	36	1.93
3521762--3521835	20	3.3	21	70	17	60	56	1	5	36	1.31
3522202--3522272	32	2.2	31	80	11	81	54	4	1	39	1.28
3524945--3524980	2	18.0	2	100	0	72	50	0	0	50	1.00
3526934--3527155	110	2.0	112	98	1	430	37	9	7	45	1.65
3526962--3527187	110	2.1	109	88	5	330	42	8	6	42	1.61
3532403--3532436	16	2.1	16	88	0	50	35	20	2	41	1.68
3541199--3541614	206	2.0	206	99	0	823	29	11	11	47	1.75
3545263--3545296	16	2.1	16	88	0	50	35	20	2	41	1.68
3545664--3546733	535	2.0	535	100	0	2140	33	16	5	44	1.71
3549082--3549136	28	2.0	27	82	7	65	5	32	3	58	1.38
3551286--3551396	31	3.7	29	80	10	107	42	12	10	34	1.78
3563166--3563236	37	1.9	37	83	11	92	38	0	4	57	1.18
3564234--3564296	20	3.2	20	70	14	51	38	1	1	58	1.17
3564274--3564298	9	2.8	9	100	0	50	32	0	0	68	0.90
3605789--3605823	2	17.5	2	93	0	61	45	0	2	51	1.16
3611009--3611066	30	1.9	30	85	0	80	31	24	5	39	1.77
3612713--3612866	40	3.8	40	83	5	186	35	19	22	22	1.96
3612905--3613053	41	3.7	41	89	1	212	22	20	27	30	1.98
3613387--3613423	14	2.6	14	95	0	65	21	0	29	48	1.50
3613472--3613504	14	2.3	15	94	5	59	30	0	33	36	1.58
3613653--3613714	7	8.9	7	83	0	79	16	0	51	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617669--3618292	100	6.2	100	100	0	1248	39	11	16	32	1.84
3619399--3619516	43	2.7	43	81	2	130	25	19	30	24	1.98
3624337--3625156	154	5.3	152	86	6	1124	52	7	10	29	1.64
3630531--3630856	162	2.0	163	99	0	645	56	9	5	27	1.54
3632638--3632692	21	2.6	21	88	0	74	63	3	1	30	1.22
3646249--3646305	28	2.0	28	100	0	114	35	0	21	43	1.52
3647631--3647787	31	5.1	31	75	4	129	44	15	8	30	1.78
3653114--3653153	17	2.4	17	86	0	53	5	12	10	72	1.26
3655110--3655154	23	1.9	23	90	4	72	60	2	8	28	1.39
3697872--3698006	69	2.0	69	98	0	261	37	12	22	26	1.90

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