genome.fa.s6.2.7.7.80.10.50.1000.103.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:  35726063

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   

This is table  103  of  109  ( 13028 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)
32819179--32819221	22	2.0	22	82	13	54	13	4	32	48	1.63
32820917--32820968	24	2.2	24	89	0	77	53	7	3	34	1.48
32821727--32821808	43	1.9	43	87	2	121	21	20	31	25	1.98
32821750--32821864	60	1.9	60	85	0	158	26	25	26	21	2.00
32821828--32822015	43	4.4	43	84	0	250	25	32	18	23	1.97
32833399--32833466	15	4.9	14	71	16	52	41	35	0	23	1.55
32833402--32833439	15	2.5	15	86	0	58	36	42	0	21	1.53
32833950--32834189	41	5.9	40	77	7	178	33	24	25	17	1.96
32833990--32834188	82	2.4	82	88	0	290	33	25	25	16	1.95
32834247--32834343	40	2.5	40	78	6	101	20	28	21	28	1.98
32838064--32838106	22	2.0	22	100	0	86	27	9	20	41	1.83
32850417--32850458	21	2.0	20	86	4	57	59	4	4	30	1.39
32855854--32855885	15	2.2	15	94	5	57	65	0	3	31	1.08
32857663--32857722	30	2.0	30	100	0	120	33	13	30	23	1.93
32858660--32858776	38	3.1	38	83	2	137	38	29	20	11	1.88
32861864--32861902	17	2.3	17	91	8	62	20	5	0	74	1.01
32861846--32861904	30	2.0	30	83	6	75	20	6	3	69	1.26
32863162--32863378	71	3.1	71	61	21	168	38	11	6	43	1.66
32863053--32863610	138	4.1	137	87	1	796	40	8	5	44	1.60
32863053--32863610	275	2.0	276	88	1	816	40	8	5	44	1.60
32867042--32867093	24	2.2	24	89	0	77	36	3	9	50	1.54
32870377--32871999	810	2.0	811	99	0	3230	30	15	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32875605--32875835	45	5.1	45	93	1	383	24	25	22	27	1.99
32876977--32877050	27	2.7	27	97	0	139	18	2	50	28	1.61
32880215--32880304	41	2.2	40	84	9	112	34	5	1	58	1.28
32880206--32880301	38	2.5	35	78	16	102	34	6	1	58	1.30
32884979--32885038	3	20.0	3	72	6	50	31	3	5	60	1.35
32885375--32885432	11	4.7	11	73	22	53	34	3	0	62	1.12
32885382--32885447	28	2.4	27	80	10	71	33	4	0	62	1.16
32891282--32892528	44	28.4	44	88	1	1685	31	20	26	22	1.98
32892523--32892662	44	3.2	41	69	10	100	30	23	20	26	1.98
32892566--32892727	43	3.7	43	71	4	135	27	23	25	22	2.00
32892523--32892740	89	2.5	88	88	4	316	29	22	23	24	1.99
32894144--32894203	3	20.0	3	72	6	50	31	3	5	60	1.35
32894188--32894225	16	2.2	18	86	9	53	31	0	7	60	1.25
32894546--32894607	28	2.2	27	80	11	72	35	3	0	61	1.12
32901803--32901829	2	13.5	2	100	0	54	51	0	0	48	1.00
32903188--32903226	17	2.1	20	86	13	57	46	5	17	30	1.70
32914395--32914465	32	2.2	32	92	0	115	39	4	29	26	1.75
32914395--32914457	16	3.9	16	87	0	99	39	3	30	26	1.72
32915825--32915849	11	2.3	11	100	0	50	76	0	16	8	1.02
32916299--32916357	24	2.5	24	72	25	61	42	5	0	52	1.23
32916296--32916381	33	2.7	31	82	8	93	41	4	0	53	1.21
32918427--32918485	29	2.0	29	96	0	109	37	33	15	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32923308--32923368	29	2.1	28	96	3	113	22	14	13	49	1.78
32934155--32934200	3	15.3	3	95	0	83	30	0	34	34	1.58
32935100--32935633	178	3.0	175	84	7	654	24	15	20	38	1.91
32937726--32938367	132	5.0	132	84	6	760	17	27	27	27	1.98
32937870--32938367	252	2.0	252	87	3	716	17	28	27	27	1.98
32937665--32938359	384	1.8	384	86	1	1025	17	28	26	27	1.98
32942912--32942957	21	2.2	21	100	0	92	26	19	15	39	1.91
32948239--32948281	2	22.0	2	95	4	79	0	51	0	48	1.00
32948895--32948961	31	2.2	31	88	0	98	37	16	17	28	1.92
32956392--32956445	30	1.9	30	85	14	80	25	3	0	70	1.04
32956402--32956443	21	2.0	22	86	13	61	28	2	0	69	1.01
32956492--32956546	25	2.2	26	84	12	71	36	5	0	58	1.21
32959071--32959109	19	2.1	19	100	0	78	35	15	5	43	1.69
32969971--32970031	31	2.0	31	86	0	86	44	18	14	22	1.86
32969812--32970190	191	2.0	188	86	5	521	41	18	12	27	1.86
32973230--32973260	16	1.9	16	93	0	53	70	3	0	25	1.02
32973605--32973683	31	2.6	30	76	21	85	51	7	1	39	1.38
32974500--32974536	12	3.0	12	92	4	56	40	0	0	59	0.97
32980331--32980382	14	3.6	14	86	5	68	36	1	13	48	1.54
32980331--32980387	16	3.4	16	86	9	87	38	1	12	47	1.51
32983882--32983930	9	5.4	9	82	0	62	28	8	18	44	1.78
32989939--32989980	16	2.6	16	84	0	57	52	16	7	23	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32992643--32992679	2	18.5	2	100	0	74	51	0	0	48	1.00
33010275--33010313	2	19.5	2	100	0	78	51	0	48	0	1.00
33010975--33011067	46	2.0	46	100	0	186	32	23	12	31	1.92
33022421--33022480	29	2.0	30	83	3	77	51	3	5	40	1.40
33022419--33022486	29	2.4	28	75	5	64	55	2	5	35	1.39
33026753--33026867	57	2.0	57	87	0	167	34	18	21	25	1.96
33027750--33027801	24	2.2	24	85	0	68	50	11	3	34	1.57
33032160--33032216	24	2.4	24	85	5	71	47	10	5	36	1.61
33032172--33032223	24	2.2	24	85	0	68	50	7	3	38	1.50
33039871--33039931	27	2.3	27	94	0	104	42	4	4	47	1.46
33039889--33039947	27	2.2	27	81	0	64	47	1	3	47	1.29
33051873--33051899	14	1.9	14	100	0	54	18	29	7	44	1.77
33059179--33059228	21	2.4	22	80	6	59	58	4	8	30	1.45
33068369--33068438	29	2.4	29	100	0	140	30	5	17	47	1.70
33069332--33069357	3	8.7	3	100	0	52	69	0	0	30	0.89
33069351--33069379	14	2.1	14	93	6	51	44	10	0	44	1.38
33082535--33082581	3	15.3	3	86	4	58	0	31	6	61	1.21
33084742--33084804	32	1.9	34	87	12	96	30	1	0	68	0.99
33084757--33084830	26	2.9	25	82	7	87	32	1	1	64	1.10
33091205--33091754	223	2.5	223	93	0	913	44	19	12	24	1.85
33094542--33094575	16	2.1	16	100	0	68	38	5	0	55	1.24
33107172--33107273	30	3.4	29	73	8	87	49	1	10	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33116063--33116137	36	2.1	36	94	0	132	61	9	10	18	1.55
33121575--33121601	1	27.0	1	100	0	54	0	0	0	100	0.00
33130585--33130609	13	1.9	13	100	0	50	48	0	0	52	1.00
33132168--33132219	20	2.7	19	88	11	72	32	0	15	51	1.43
33132483--33132770	103	2.8	100	86	8	388	25	1	17	55	1.50
33137609--33137646	20	1.9	20	94	0	67	44	39	0	15	1.47
33146015--33146089	31	2.4	31	86	4	98	30	6	9	53	1.59
33147456--33147525	29	2.4	30	81	13	83	30	7	8	54	1.58
33147672--33147743	29	2.4	30	80	15	78	47	8	15	29	1.74
33156754--33156790	3	12.3	3	100	0	74	67	0	0	32	0.91
33159583--33159610	13	2.2	13	100	0	56	57	0	28	14	1.38
33160636--33160660	12	2.1	12	100	0	50	16	8	8	68	1.38
33164982--33165027	15	3.1	15	78	12	51	41	0	2	56	1.11
33166487--33166571	25	3.6	25	81	9	81	30	5	2	61	1.32
33168521--33168566	23	2.1	21	88	11	67	63	2	2	32	1.19
33169812--33169845	14	2.5	14	95	4	61	50	35	0	14	1.44
33172753--33172941	94	2.0	95	98	1	371	39	8	12	39	1.74
33181701--33181756	21	2.8	20	78	10	60	62	0	10	26	1.28
33182025--33182074	20	2.5	21	87	9	77	44	0	0	56	0.99
33182441--33182466	4	6.5	4	100	0	52	23	0	0	76	0.78
33191125--33191275	45	3.3	45	87	4	214	40	20	19	19	1.92
33191127--33191302	45	4.2	39	76	17	140	39	21	19	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33191477--33191564	40	2.2	40	84	9	110	37	18	7	36	1.80
33192285--33192310	11	2.4	11	100	0	52	0	42	7	50	1.31
33203568--33203666	31	3.3	30	68	16	89	25	16	15	43	1.86
33209874--33209958	28	3.0	28	78	13	84	30	2	5	61	1.32
33212136--33212167	3	10.7	3	93	0	55	62	0	3	34	1.11
33212450--33212483	17	2.0	17	88	0	50	47	5	5	41	1.52
33219607--33219695	43	2.1	43	95	0	160	41	13	7	37	1.74
33219887--33219922	14	2.4	16	90	9	58	55	2	11	30	1.49
33219918--33219952	17	2.1	17	88	0	52	48	0	14	37	1.44
33219887--33219974	14	6.5	14	70	17	53	52	1	12	34	1.47

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