genome.fa.s12.2.7.7.80.10.50.1000.2.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  2  of  128  ( 15303 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)
492346--492566	44	4.8	44	68	19	137	28	19	19	33	1.96
492248--492681	142	3.1	143	94	1	748	28	19	17	34	1.95
505396--505448	23	2.3	24	78	15	58	50	7	0	41	1.30
506940--506980	18	2.3	18	100	0	82	41	0	17	41	1.49
506949--507191	9	28.0	9	66	17	95	37	1	17	43	1.59
507000--507077	41	1.9	41	91	0	129	39	3	14	42	1.63
506938--507184	25	9.9	25	78	8	155	37	1	17	43	1.58
507088--507189	47	2.1	47	78	10	109	36	0	19	43	1.58
507847--507919	21	3.3	20	68	17	56	60	6	4	28	1.41
508308--508344	19	1.9	19	100	0	74	43	18	5	32	1.73
508660--508693	13	2.4	14	90	9	52	20	0	0	79	0.73
509271--509304	14	2.5	14	90	4	52	20	0	0	79	0.73
509271--509304	13	2.5	13	90	9	50	20	0	0	79	0.73
511253--511288	14	2.6	14	95	0	63	44	47	0	8	1.33
511846--512591	114	6.5	114	92	0	1174	25	20	19	34	1.96
511846--512760	342	2.7	339	85	5	954	25	20	19	34	1.96
518467--518492	2	13.0	2	100	0	52	50	0	0	50	1.00
519862--519965	52	2.0	52	98	0	199	31	17	18	32	1.94
523901--523958	28	2.1	28	90	6	91	41	6	12	39	1.69
524026--524071	19	2.4	19	77	0	56	56	2	0	41	1.11
524025--524116	20	4.3	20	68	20	53	56	3	0	40	1.15
525830--525892	27	2.4	26	85	12	85	65	1	7	25	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525829--525919	23	3.8	23	72	12	67	67	1	8	23	1.25
525871--525907	14	2.7	14	91	4	58	70	0	10	18	1.16
525829--525899	4	17.8	4	71	11	56	67	1	7	23	1.23
527574--528329	44	16.6	44	72	9	342	29	19	17	33	1.95
527570--527810	133	1.8	133	86	1	349	28	20	17	34	1.95
527574--528329	90	8.3	89	76	7	504	29	19	17	33	1.95
534499--534568	4	17.8	4	72	8	54	65	1	7	25	1.26
548278--548307	14	2.1	14	93	0	51	73	0	26	0	0.84
548942--548971	14	2.1	14	93	0	51	73	0	26	0	0.84
548096--549423	664	2.0	664	99	0	2638	37	12	14	34	1.85
560662--560760	3	33.7	3	87	2	139	33	2	1	63	1.12
569027--569755	89	8.1	89	86	2	859	29	17	24	27	1.98
569027--569749	45	16.2	45	71	7	389	29	17	24	27	1.97
569680--569780	44	2.3	44	89	0	148	36	13	21	27	1.92
571306--571342	3	12.0	3	94	5	65	32	0	0	67	0.91
575405--575439	6	5.8	6	100	0	70	85	0	0	14	0.59
576201--576241	21	2.0	21	90	0	64	41	0	0	58	0.98
576200--576259	17	3.3	17	76	17	57	40	0	1	58	1.08
576943--576985	22	2.0	22	85	0	59	55	11	13	18	1.68
582777--582830	28	1.9	28	85	7	74	27	9	9	53	1.63
583799--583850	3	17.3	3	100	0	104	65	0	0	34	0.93
584446--584494	22	2.3	20	80	13	53	51	8	8	32	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585242--585275	6	5.7	6	89	0	50	29	0	35	35	1.58
590481--590597	54	2.2	54	93	3	200	39	14	5	41	1.68
591954--591979	11	2.4	11	100	0	52	38	0	0	61	0.96
591962--592000	19	2.0	19	90	5	60	35	0	0	64	0.94
597219--597253	17	2.2	17	90	10	56	57	25	5	11	1.56
597341--597383	20	2.2	20	91	8	70	55	9	13	20	1.66
597387--597411	2	12.5	2	100	0	50	52	0	0	48	1.00
599228--599278	25	2.0	26	84	3	68	39	9	11	39	1.75
601133--601648	106	4.9	106	99	0	1005	30	17	20	31	1.96
607570--607634	20	3.3	19	67	21	53	55	0	0	44	0.99
608767--608815	25	2.0	25	96	4	91	36	0	0	63	0.95
609190--609269	41	2.0	41	94	0	142	37	23	12	26	1.90
609691--609751	32	1.9	32	100	0	122	22	9	21	45	1.81
613633--613690	28	2.1	28	90	0	89	36	0	15	48	1.45
616778--616822	21	2.0	22	84	16	58	46	0	11	42	1.39
622025--622080	29	1.9	29	86	13	80	60	10	8	19	1.55
622258--622310	24	2.2	24	86	3	72	39	9	0	50	1.35
622249--622306	20	2.7	21	73	19	57	41	6	0	51	1.28
622554--622590	17	2.2	17	90	0	56	8	5	2	83	0.88
624494--624541	24	2.0	24	95	0	87	29	22	4	43	1.72
628689--628852	43	3.9	42	76	15	167	21	18	29	31	1.97
632875--632924	24	2.1	24	96	0	91	32	22	4	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636718--636776	31	1.9	31	92	0	100	52	3	22	22	1.61
644040--644093	25	2.2	25	86	6	74	16	24	20	38	1.92
644076--644137	22	2.8	22	95	0	106	17	29	19	33	1.95
644231--644289	31	1.9	31	92	0	100	52	3	22	22	1.61
645136--645207	22	3.2	22	73	7	81	47	11	12	29	1.76
645119--645210	46	2.0	46	97	0	175	45	11	11	30	1.77
645121--645198	24	3.3	24	76	7	97	47	11	12	28	1.76
651908--651952	9	4.8	9	84	10	63	64	4	0	31	1.13
653223--653278	29	1.9	29	85	7	78	58	1	5	33	1.31
653222--653281	9	6.4	9	73	21	52	56	1	5	36	1.31
653216--653275	20	3.0	21	77	20	65	58	3	6	31	1.40
653647--653682	10	3.8	10	85	14	58	58	0	0	41	0.98
653648--653686	18	2.2	18	95	4	71	56	0	0	43	0.99
653846--653882	16	2.3	16	90	0	56	24	0	2	72	0.97
654098--654140	20	2.2	20	84	12	54	60	2	2	34	1.22
654296--654350	20	2.9	19	79	15	60	63	5	1	29	1.27
660648--660693	24	2.0	24	83	12	60	23	2	15	58	1.48
663499--663711	106	2.0	106	88	1	320	39	15	16	29	1.89
664094--664130	13	2.7	14	91	8	67	72	13	5	8	1.24
665427--665547	46	2.7	45	91	3	192	28	22	15	33	1.95
672619--672680	28	2.2	28	85	5	81	77	9	4	8	1.12
673933--674938	88	11.5	88	87	1	1215	27	24	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674719--674938	89	2.5	89	88	0	314	30	23	23	23	1.99
674711--674938	45	5.1	45	75	10	200	31	22	23	22	1.99
675034--675186	40	3.8	40	82	7	191	28	24	22	24	1.99
675035--675197	82	2.0	84	90	2	258	30	25	20	22	1.98
675725--675750	13	2.0	13	100	0	52	76	7	7	7	1.15
687840--687872	11	3.3	10	88	12	50	0	42	0	57	0.98
691548--691589	21	1.9	23	85	9	61	35	19	11	33	1.88
700423--700447	11	2.3	11	100	0	50	60	0	0	40	0.97
704063--704134	26	2.7	26	76	16	74	50	0	0	50	1.00
708028--708093	30	2.2	30	80	0	78	25	18	18	37	1.93
714638--714708	35	2.0	36	83	2	90	39	16	19	23	1.92
718113--718304	95	2.0	95	89	0	294	33	17	18	31	1.94
719973--720072	42	2.4	42	96	0	182	19	28	16	37	1.92
720334--720367	2	17.0	2	100	0	68	50	0	0	50	1.00
720913--720975	31	2.0	31	100	0	126	30	28	9	31	1.89
723617--723642	7	3.7	7	100	0	52	73	0	0	26	0.84
727278--727343	22	3.2	20	76	18	55	37	4	0	57	1.19
727288--727386	22	4.3	22	75	13	74	39	4	0	56	1.18
727293--727365	24	3.0	24	88	4	103	36	5	0	57	1.22
727274--727391	24	5.1	24	75	10	77	41	4	0	54	1.20
727765--727799	18	2.1	16	89	10	52	54	0	0	45	0.99
728366--728415	25	2.0	26	88	4	75	28	6	6	60	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
738089--738126	18	2.0	20	85	10	53	15	7	31	44	1.75
739195--739263	3	22.3	3	77	14	52	66	2	4	26	1.24
739716--739745	7	4.4	7	91	8	53	0	60	0	40	0.97
739716--739745	13	2.2	13	94	5	51	0	60	0	40	0.97
746904--746947	19	2.3	19	84	7	54	65	4	4	25	1.30
755433--755500	23	3.0	23	79	14	79	19	20	19	41	1.91
755434--755500	22	3.0	22	79	14	75	17	20	19	41	1.90
757618--757872	83	3.1	83	98	0	492	31	10	21	35	1.89
771633--771702	30	2.3	31	80	7	81	22	27	18	31	1.97
784121--784198	40	2.0	39	80	7	88	58	0	3	37	1.16

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