genome.fa.s1.2.7.7.80.10.50.1000.12.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  12  of  93  ( 11113 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)
5999581--5999654	23	3.3	23	83	5	80	56	4	1	37	1.27
5999579--5999655	22	3.5	21	79	11	91	58	3	1	36	1.25
5999558--5999821	127	2.1	130	85	5	360	54	4	2	38	1.33
5999771--5999802	16	2.1	16	94	5	57	65	0	0	34	0.93
6003775--6003856	40	2.0	40	84	9	105	62	1	4	31	1.24
6003984--6004036	23	2.3	23	80	3	63	35	3	0	60	1.15
6007239--6007277	21	1.9	20	84	5	51	38	10	5	46	1.60
6007264--6007305	22	1.9	22	85	0	57	23	16	7	52	1.68
6021786--6021823	16	2.4	16	82	13	51	31	5	5	57	1.43
6023125--6023209	42	2.0	42	88	0	125	27	18	25	28	1.98
6029131--6029269	26	5.5	26	72	14	105	33	0	2	64	1.06
6029225--6029305	26	3.2	25	76	13	69	41	0	2	55	1.13
6029631--6029714	16	5.4	16	71	21	63	46	0	1	52	1.08
6029631--6029670	18	2.4	17	91	8	64	47	0	0	52	1.00
6029633--6029733	44	2.3	45	84	6	136	47	0	0	51	1.07
6029815--6029847	17	1.9	17	93	0	57	45	15	15	24	1.84
6031315--6031354	20	2.1	19	85	4	53	50	7	0	42	1.30
6032564--6032596	2	16.5	2	100	0	66	51	0	0	48	1.00
6033873--6033903	13	2.5	13	94	5	55	38	0	0	61	0.96
6034058--6034112	18	3.7	14	78	19	58	27	1	0	70	0.97
6034221--6034250	16	1.9	16	93	6	53	30	0	6	63	1.20
6034621--6034709	40	2.2	41	82	9	112	42	0	1	56	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6034647--6034717	15	5.3	14	69	14	51	43	0	0	56	0.99
6034623--6034709	38	2.2	40	81	10	106	42	0	1	56	1.07
6034602--6034775	31	5.1	35	78	15	145	42	0	0	56	1.08
6034636--6034756	38	3.2	37	76	18	99	41	0	0	57	1.10
6034601--6034771	67	2.6	64	77	19	167	42	0	0	56	1.08
6047577--6047627	19	2.5	21	78	9	61	49	21	3	25	1.67
6047854--6047901	21	2.3	21	96	0	87	54	20	4	20	1.61
6047854--6047907	21	2.5	20	91	5	81	51	22	3	22	1.63
6047974--6048101	21	6.2	21	67	6	64	46	18	3	31	1.67
6049025--6049145	35	3.3	36	79	10	122	61	6	0	31	1.27
6049648--6049680	15	2.1	17	88	11	52	39	0	9	51	1.34
6049716--6049760	23	2.0	23	81	0	54	48	2	8	40	1.47
6062060--6062098	18	2.2	18	90	0	60	15	17	23	43	1.87
6062109--6062187	28	2.8	28	82	0	86	26	15	17	40	1.89
6062252--6062351	25	4.0	26	76	5	80	29	14	15	42	1.85
6062792--6062839	21	2.3	22	82	7	55	60	0	27	12	1.32
6063380--6063417	18	2.1	19	90	5	60	26	0	0	73	0.83
6065817--6065857	21	2.0	21	85	0	55	53	7	0	39	1.29
6071326--6071385	26	2.3	26	82	2	75	38	3	11	46	1.57
6073398--6073448	23	2.3	22	83	10	59	25	1	3	68	1.17
6082449--6082507	19	3.0	20	76	14	61	33	22	1	42	1.63
6087429--6087467	20	1.9	21	89	5	62	12	41	0	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6089936--6089978	21	2.0	21	86	0	59	32	18	18	30	1.95
6091021--6091050	14	2.2	13	94	5	51	90	0	10	0	0.47
6101356--6101447	8	10.4	9	73	22	63	54	5	1	39	1.31
6101409--6101447	2	20.0	2	89	5	62	53	0	0	46	1.00
6106504--6106601	51	1.9	51	82	10	121	40	2	3	54	1.28
6108583--6108645	21	2.9	22	78	4	83	20	12	23	42	1.86
6108658--6108764	46	2.4	45	85	4	135	37	28	9	24	1.86
6108658--6108736	23	3.4	23	92	0	131	40	29	7	22	1.82
6108703--6108906	26	8.5	26	73	13	136	37	26	12	23	1.90
6108734--6108927	95	2.0	95	91	2	309	37	25	12	24	1.91
6111287--6111367	2	40.5	2	97	0	153	50	1	0	48	1.08
6111947--6112014	33	2.1	33	85	0	91	52	7	2	36	1.44
6113691--6113733	2	21.5	2	95	0	77	48	2	0	48	1.14
6119819--6119986	35	4.8	35	89	3	241	26	42	13	17	1.86
6120295--6120332	12	3.2	12	81	3	51	21	0	0	78	0.74
6120297--6120346	24	2.1	23	82	10	57	22	2	2	74	1.03
6135461--6135495	2	17.5	2	93	0	61	45	0	0	54	0.99
6135465--6135505	8	5.1	8	93	0	55	39	0	0	60	0.96
6135465--6135503	12	3.2	12	92	0	60	41	0	0	58	0.98
6136277--6136321	17	2.5	18	82	7	56	64	0	4	31	1.13
6136276--6136319	18	2.4	19	76	3	54	65	0	4	29	1.12
6137598--6137650	22	2.4	22	93	0	88	60	3	32	3	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6138453--6138477	13	1.9	13	100	0	50	24	4	8	64	1.38
6151044--6151106	28	2.3	27	75	10	65	12	11	26	49	1.74
6151200--6151288	34	2.6	34	80	0	115	23	13	22	40	1.89
6151986--6152024	21	1.9	20	89	5	60	48	2	2	46	1.29
6156031--6156061	15	2.1	15	93	0	53	45	22	0	32	1.53
6157333--6157359	5	5.4	5	100	0	54	37	22	0	40	1.54
6161967--6162006	19	2.1	19	100	0	80	35	10	37	17	1.83
6174524--6174553	9	3.3	9	95	0	51	20	6	0	73	1.05
6185899--6185932	15	2.3	15	89	0	50	79	2	14	2	0.97
6198191--6198252	32	2.0	31	83	3	79	40	8	33	17	1.79
6198285--6198413	49	2.6	49	83	9	172	50	13	26	10	1.72
6216766--6216804	20	2.0	20	94	0	69	43	10	7	38	1.67
6229674--6229875	104	1.9	105	84	1	271	42	14	12	30	1.83
6231224--6231263	16	2.6	16	88	4	55	45	45	0	10	1.37
6234642--6234709	33	2.1	33	88	0	100	14	2	13	69	1.31
6235092--6235124	13	2.4	14	90	5	50	33	9	0	57	1.30
6236564--6236602	20	1.9	21	89	5	62	30	2	0	66	1.05
6237721--6237791	31	2.3	31	87	4	99	29	18	28	23	1.98
6240116--6240156	19	2.1	20	86	13	59	51	17	4	26	1.65
6240315--6240421	43	2.5	40	78	12	106	42	14	11	31	1.82
6243395--6243492	42	2.3	42	77	5	99	44	13	11	30	1.78
6256616--6256663	23	2.1	23	92	0	78	45	14	25	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6260967--6260999	16	2.1	16	94	0	57	9	15	0	75	1.03
6265339--6265374	18	1.9	19	88	5	56	47	0	0	52	1.00
6266805--6266901	29	3.3	28	81	4	86	39	2	3	55	1.27
6266839--6266901	30	2.1	29	91	2	99	38	3	3	55	1.32
6268044--6268225	92	2.0	90	95	2	328	36	13	11	38	1.81
6270942--6270980	18	2.1	19	85	4	53	0	17	5	76	0.96
6282941--6282974	12	2.8	12	86	0	50	17	17	29	35	1.93
6283348--6283438	45	2.0	45	97	0	173	29	7	9	52	1.62
6291638--6291693	29	1.9	29	88	0	85	58	3	3	33	1.32
6291959--6291989	16	1.9	16	93	0	53	25	16	19	38	1.92
6292212--6292259	18	2.5	20	86	10	73	52	2	0	45	1.12
6292214--6292282	18	3.5	19	79	15	52	52	1	1	44	1.19
6292228--6292326	44	2.2	45	85	5	130	49	1	5	44	1.31
6292364--6292437	23	3.3	22	67	14	60	50	4	4	41	1.40
6294299--6294337	13	2.9	15	75	25	50	58	0	0	41	0.98
6301891--6301932	15	2.7	15	88	3	66	73	0	26	0	0.83
6302602--6302636	12	2.9	12	86	0	52	0	68	2	28	1.04
6323319--6323711	199	2.0	199	97	0	741	27	13	20	38	1.91
6324327--6324384	30	1.9	30	100	0	116	34	37	10	17	1.84
6341890--6341955	28	2.3	29	78	14	75	46	6	0	46	1.27
6341891--6341955	29	2.3	28	77	15	71	46	6	0	47	1.27
6351210--6351667	224	2.0	225	94	3	798	40	17	8	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6353430--6353500	29	2.4	29	81	6	81	22	12	19	45	1.84
6353645--6353770	27	4.7	27	78	4	121	46	8	4	40	1.56
6355470--6355507	17	2.2	17	100	0	76	23	15	39	21	1.92
6357205--6357271	33	2.0	33	100	0	134	55	14	2	26	1.54
6360113--6360137	2	12.5	2	100	0	50	52	0	0	48	1.00
6361843--6361911	21	3.3	21	67	25	65	39	7	27	26	1.82
6361834--6361917	41	2.0	41	100	0	168	38	7	27	27	1.83
6377737--6377787	21	2.5	20	75	12	50	33	1	5	58	1.33
6378040--6378093	28	2.0	26	89	7	81	22	0	9	68	1.17
6380933--6380963	10	3.1	10	90	0	53	41	9	0	48	1.36

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