genome.fa.s4.2.7.7.80.10.50.1000.10.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   

This is table  10  of  163  ( 19464 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)
3280847--3281221	187	2.0	188	99	0	743	36	9	6	47	1.62
3285954--3285996	19	2.3	19	84	8	52	51	9	2	37	1.47
3286934--3286985	26	2.0	25	85	3	68	65	1	1	30	1.14
3287393--3287452	29	2.0	30	83	3	77	41	13	3	41	1.60
3293735--3293759	13	1.9	13	100	0	50	24	0	24	52	1.48
3303705--3303843	57	2.4	57	79	6	145	20	18	20	40	1.92
3319549--3320353	218	3.7	213	80	7	714	36	19	15	28	1.93
3322899--3322936	14	2.5	15	91	8	60	36	0	0	63	0.95
3323505--3323584	30	2.7	29	81	11	83	40	1	6	52	1.35
3323516--3323584	30	2.3	30	85	7	86	39	1	5	53	1.34
3324105--3324139	15	2.2	16	90	5	54	37	2	0	60	1.12
3328823--3328880	11	5.4	11	74	12	57	37	5	0	56	1.21
3328813--3328881	32	2.2	32	91	0	111	34	4	0	60	1.16
3328834--3328913	21	4.1	19	75	12	72	37	2	0	60	1.11
3328894--3328942	12	4.4	11	77	12	55	38	2	0	59	1.09
3328823--3328920	39	2.4	38	85	10	115	36	4	0	59	1.17
3328901--3328950	22	2.3	22	82	0	64	34	2	4	60	1.27
3332403--3332470	35	1.9	35	84	0	91	16	22	13	48	1.80
3342822--3343304	230	2.1	230	83	6	602	44	16	8	29	1.78
3344197--3344230	11	3.1	11	87	12	52	79	0	17	2	0.86
3346209--3346242	13	2.8	12	87	12	52	52	0	0	47	1.00
3346878--3346910	2	17.0	2	87	6	50	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347514--3347541	6	4.7	6	100	0	56	0	50	32	17	1.47
3358235--3358263	9	3.3	9	95	4	51	0	6	0	93	0.36
3360610--3360642	16	1.9	18	88	11	52	57	6	0	36	1.23
3363372--3363418	21	2.1	23	84	7	62	65	2	4	27	1.22
3364152--3364188	16	2.2	18	85	9	51	54	5	16	24	1.63
3364743--3364853	56	2.0	56	98	0	213	23	27	14	34	1.94
3365692--3365742	25	2.0	26	85	11	70	41	3	1	52	1.31
3370012--3370115	50	2.1	49	83	7	129	20	12	25	42	1.87
3371412--3371453	22	1.9	22	85	0	57	30	4	19	45	1.71
3372013--3372062	26	2.0	25	92	4	82	32	14	10	44	1.78
3374693--3374738	5	8.8	5	95	2	74	80	2	17	0	0.81
3376123--3376182	30	2.0	30	83	6	77	46	3	0	50	1.18
3396522--3396588	34	2.0	34	82	8	84	59	2	8	28	1.42
3399470--3399624	77	2.0	78	98	1	303	43	10	10	36	1.73
3402564--3402602	16	2.5	15	80	8	51	35	0	0	64	0.94
3403492--3403527	2	18.0	2	100	0	72	50	0	0	50	1.00
3411020--3411066	24	2.0	25	87	8	71	27	10	2	59	1.42
3419620--3420060	220	2.0	220	100	0	882	21	24	26	26	1.99
3421373--3421451	31	2.5	32	89	4	117	50	5	1	43	1.32
3422422--3422483	32	1.9	32	83	6	81	58	14	3	24	1.51
3422797--3422853	26	2.2	26	87	0	78	22	3	15	57	1.53
3427423--3427463	19	2.2	18	86	4	55	34	17	0	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3427872--3427916	24	2.0	22	86	8	63	0	22	2	75	0.91
3429534--3429563	14	2.1	14	93	0	51	36	10	43	10	1.72
3429574--3429640	33	2.0	33	94	0	116	38	2	44	13	1.59
3429842--3429875	13	2.8	12	86	8	50	0	14	2	82	0.79
3434151--3434215	28	2.4	28	87	7	89	30	3	0	66	1.07
3434186--3434225	19	2.2	18	90	4	62	40	0	2	57	1.12
3435825--3435855	2	16.0	2	93	6	55	48	0	0	51	1.00
3436651--3436783	40	3.4	38	76	7	124	26	19	24	29	1.99
3437182--3437210	15	1.9	15	100	0	58	31	0	13	55	1.39
3446362--3446617	125	2.1	124	88	2	379	30	16	22	31	1.95
3449889--3449941	22	2.4	23	81	6	65	66	5	0	28	1.15
3451014--3451072	28	2.1	28	87	3	84	64	3	0	32	1.10
3454378--3454405	14	2.0	14	100	0	56	14	0	14	71	1.15
3457275--3457314	21	1.9	21	89	0	62	50	0	0	50	1.00
3459645--3459675	16	1.9	16	93	0	53	48	9	6	35	1.62
3462520--3462554	18	1.9	18	94	0	61	54	0	2	42	1.15
3466025--3466058	17	2.1	17	88	5	52	58	0	5	35	1.22
3466444--3466481	19	2.0	20	89	5	60	26	0	2	71	1.00
3469922--3469949	14	2.0	14	100	0	56	57	0	0	42	0.99
3471199--3471483	54	5.3	54	100	0	570	43	17	3	35	1.67
3472546--3472597	27	1.9	27	92	0	86	17	21	38	23	1.93
3472644--3472718	27	3.1	23	78	17	89	56	13	1	29	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473812--3473843	16	1.9	17	93	6	57	43	0	0	56	0.99
3473817--3473866	22	2.3	22	89	0	73	50	2	2	46	1.24
3473840--3473883	16	2.8	16	85	0	61	43	2	6	47	1.42
3473954--3473981	9	3.1	9	100	0	56	32	0	10	57	1.33
3473870--3474012	68	2.1	66	92	2	241	41	3	9	45	1.54
3474022--3474056	3	11.7	3	100	0	70	34	0	0	65	0.93
3477331--3478084	239	3.1	237	78	9	805	25	12	24	37	1.90
3486009--3486062	26	2.1	26	89	0	81	48	3	5	42	1.44
3489519--3489550	5	6.2	5	96	3	55	40	0	0	59	0.97
3493330--3493503	86	2.0	87	98	1	341	30	8	13	47	1.72
3495274--3495315	2	21.0	2	95	0	75	50	2	0	47	1.14
3496552--3496601	14	3.6	14	77	0	55	52	6	2	40	1.38
3500480--3500799	159	2.0	157	87	2	453	34	23	10	31	1.89
3501195--3501870	300	2.3	291	86	4	946	39	20	11	28	1.87
3503861--3503893	2	16.5	2	93	0	57	45	0	3	51	1.16
3503870--3504366	248	2.0	249	99	0	987	27	14	18	39	1.90
3505106--3505215	35	3.1	35	64	13	91	39	5	6	49	1.52
3505106--3505255	70	2.1	71	97	1	284	36	6	6	50	1.53
3507058--3507108	23	2.1	25	85	7	70	50	7	1	39	1.42
3508204--3508381	81	2.2	82	94	3	324	44	7	6	40	1.60
3508588--3508613	7	3.7	7	100	0	52	57	11	0	30	1.34
3512651--3512953	160	1.9	162	80	4	362	35	14	10	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3518442--3518470	13	2.1	14	93	6	51	75	10	0	13	1.04
3523978--3524019	22	1.9	22	85	9	59	71	19	4	4	1.22
3526161--3526343	91	2.0	91	89	0	276	44	7	8	39	1.63
3526251--3526289	19	2.0	20	85	5	53	46	0	7	46	1.31
3526303--3526403	30	3.4	30	74	10	107	50	6	5	36	1.54
3526285--3526403	60	2.0	60	86	1	166	46	10	7	35	1.68
3526194--3526497	151	2.0	152	99	0	601	45	8	7	38	1.63
3526402--3526440	19	2.0	20	85	5	53	46	0	7	46	1.31
3529335--3529401	6	11.0	6	79	7	73	19	0	1	79	0.82
3529326--3529423	25	3.9	24	75	10	90	26	0	2	71	0.97
3529332--3529400	19	3.4	19	79	16	84	18	0	1	79	0.80
3548557--3548843	96	3.0	96	90	2	425	24	8	22	44	1.81
3548862--3548891	14	2.1	14	100	0	60	13	30	16	40	1.87
3548876--3549114	98	2.5	92	80	10	218	21	11	25	42	1.86
3548932--3549151	98	2.2	100	84	2	291	24	11	24	40	1.88
3548931--3549160	99	2.3	96	80	6	280	23	10	24	40	1.87
3549115--3549218	54	1.9	54	84	3	138	27	16	17	38	1.91
3553987--3554041	29	1.9	28	82	10	67	45	7	1	45	1.41
3556326--3556350	9	2.8	9	100	0	50	72	0	16	12	1.13
3563424--3563756	176	1.9	174	84	4	451	43	16	15	24	1.87
3563748--3563782	3	11.7	3	87	0	52	31	2	34	31	1.73
3564446--3564486	4	10.0	4	89	5	55	24	4	48	21	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3567576--3567606	3	10.3	3	100	0	62	67	0	0	32	0.91
3571523--3571573	13	3.8	14	78	14	54	58	3	0	37	1.16
3571532--3571574	14	3.1	14	80	9	52	58	2	0	39	1.11
3583604--3583825	85	2.6	84	84	4	275	30	17	10	41	1.83
3589332--3589401	35	2.0	35	100	0	140	17	28	14	40	1.88
3603168--3603204	19	1.9	19	94	0	65	35	5	16	43	1.71
3603788--3603830	22	1.9	23	85	4	61	51	0	4	44	1.22
3604406--3604469	30	2.1	30	86	11	87	25	9	6	59	1.52
3622815--3622876	29	2.2	28	82	5	81	45	16	12	25	1.83
3624542--3624595	9	6.3	9	77	12	51	12	0	53	33	1.39

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