genome.fa.s6.2.7.7.80.10.50.1000.12.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:  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  12  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)
4023451--4023480	15	2.0	15	93	0	51	53	3	6	36	1.44
4023455--4023501	23	2.0	23	91	0	76	46	4	6	42	1.48
4023462--4023517	23	2.4	23	84	3	67	46	5	3	44	1.43
4024313--4024361	3	16.7	3	89	4	73	36	0	2	61	1.08
4024978--4025067	23	4.0	23	82	7	114	18	21	23	36	1.95
4027607--4027709	33	3.2	33	82	4	113	32	49	6	11	1.65
4027711--4027837	24	5.1	27	58	27	66	25	48	10	14	1.76
4027670--4027948	48	5.8	48	95	0	486	28	48	9	13	1.73
4027670--4028030	144	2.5	139	86	6	384	28	49	9	13	1.72
4050728--4050771	15	2.9	15	89	3	70	38	11	0	50	1.39
4052226--4052299	7	10.7	7	75	17	57	72	0	5	21	1.04
4052239--4052309	20	3.4	20	80	14	81	74	0	4	21	0.98
4052243--4052308	15	4.1	15	73	21	53	77	0	4	18	0.94
4053093--4053166	7	10.7	7	75	17	57	72	0	5	21	1.04
4053106--4053176	20	3.4	20	80	14	81	74	0	4	21	0.98
4053110--4053175	15	4.1	15	73	21	53	77	0	4	18	0.94
4051671--4053406	867	2.0	867	100	0	3472	38	16	16	27	1.91
4057129--4057164	15	2.5	14	86	8	54	44	5	2	47	1.41
4059453--4059513	21	3.1	19	81	11	68	52	1	1	44	1.20
4059453--4059533	19	4.1	19	78	13	74	49	3	2	44	1.33
4060991--4061053	29	2.2	29	91	0	99	34	7	15	41	1.77
4067410--4067443	17	2.1	17	88	5	52	41	0	8	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4068476--4068515	20	2.0	20	90	0	62	27	10	12	50	1.72
4068461--4068527	34	1.9	35	90	3	109	31	8	13	46	1.74
4068455--4068531	14	5.0	15	71	20	52	33	9	14	42	1.77
4069709--4069753	22	2.0	22	83	8	56	60	6	4	28	1.42
4077440--4077559	60	2.0	60	98	0	231	30	15	20	33	1.93
4078105--4078150	24	2.0	22	87	8	65	32	10	0	56	1.34
4095349--4095513	80	2.1	80	98	0	321	31	24	6	38	1.80
4098067--4098111	22	2.0	22	86	0	63	40	4	8	46	1.55
4113448--4113483	18	1.9	18	88	5	54	38	2	0	58	1.13
4123194--4123323	67	1.9	67	98	0	251	26	33	19	20	1.96
4128064--4128095	16	2.0	16	93	0	55	59	0	15	25	1.36
4128624--4129477	427	2.0	427	98	0	1663	36	7	21	33	1.83
4131246--4131345	47	2.1	47	83	3	121	27	16	27	30	1.96
4133821--4134003	51	3.6	49	75	5	161	23	17	28	30	1.97
4134234--4134265	16	2.0	16	93	0	55	59	0	15	25	1.36
4146270--4146349	34	2.4	34	86	0	106	35	27	6	31	1.82
4146746--4147353	302	2.0	302	99	0	1198	27	16	15	40	1.89
4151231--4151265	17	2.1	17	100	0	70	51	5	17	25	1.67
4152606--4152650	22	2.0	23	82	4	56	33	13	26	26	1.93
4157807--4157857	23	2.2	23	100	0	102	25	19	27	27	1.99
4159043--4159100	28	2.1	28	93	0	98	37	20	12	29	1.89
4164498--4164680	70	2.6	71	91	4	291	35	12	13	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4168196--4168234	10	3.7	10	83	12	51	35	0	0	64	0.94
4168199--4168234	12	3.3	11	88	11	56	33	0	0	66	0.92
4179308--4179385	3	26.3	3	97	2	149	67	0	32	0	0.90
4181888--4181927	11	3.7	11	90	3	64	7	37	0	55	1.29
4181897--4181933	11	2.9	13	84	15	51	8	37	0	54	1.30
4183341--4183968	316	2.0	316	94	1	1107	29	17	20	32	1.96
4191962--4192006	22	1.9	25	86	13	69	55	8	0	35	1.31
4197038--4197085	21	2.3	21	100	0	96	12	22	25	39	1.89
4207653--4207700	22	2.3	22	85	7	64	60	8	4	27	1.44
4231548--4231602	27	2.0	27	96	0	101	30	18	5	45	1.72
4240072--4240110	18	2.1	19	85	9	53	41	0	15	43	1.46
4255975--4256017	20	2.2	20	87	4	61	34	4	6	53	1.49
4255979--4256025	19	2.4	19	83	13	60	36	4	6	53	1.46
4268793--4268879	44	2.0	44	86	4	122	31	17	22	28	1.97
4268656--4269086	142	3.0	142	89	0	666	33	18	21	27	1.96
4268949--4269060	44	2.5	44	80	5	120	31	18	20	29	1.97
4269733--4269757	11	2.3	11	100	0	50	16	16	0	68	1.22
4270890--4270932	20	2.2	20	87	4	61	34	4	6	53	1.49
4270894--4270940	19	2.4	19	83	13	60	36	4	6	53	1.46
4276438--4276640	27	7.5	27	81	3	149	33	25	12	29	1.92
4276437--4276662	54	4.2	54	85	3	240	31	25	12	30	1.92
4276459--4276664	81	2.5	81	84	1	261	30	26	12	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4276465--4276662	27	7.3	27	85	0	225	30	26	13	30	1.94
4280893--4280933	16	2.6	15	85	11	55	12	29	4	53	1.58
4283233--4283417	99	1.9	99	81	4	230	28	10	9	51	1.66
4285061--4285120	17	3.6	16	75	6	57	43	8	18	30	1.79
4290644--4290805	61	2.7	60	77	7	161	32	19	9	38	1.83
4293597--4293630	16	2.1	16	88	0	50	64	0	0	35	0.94
4293613--4293655	22	2.0	22	86	4	61	58	0	0	41	0.98
4293601--4293658	19	3.2	19	75	4	57	65	0	0	34	0.93
4296839--4296867	14	2.0	15	93	6	51	17	6	6	68	1.34
4308645--4308712	32	2.2	32	84	7	86	26	4	4	64	1.31
4308698--4308845	73	2.0	74	98	1	289	44	5	5	44	1.49
4317841--4317981	40	3.5	40	85	1	149	33	15	31	19	1.93
4320052--4320163	39	2.9	39	73	0	107	29	6	23	41	1.79
4321374--4321790	26	16.1	26	83	5	461	37	17	17	28	1.92
4321374--4321799	78	5.5	77	82	6	509	37	17	17	28	1.92
4321992--4322041	26	1.9	26	87	0	73	22	20	22	36	1.96
4322480--4322514	18	1.9	18	88	11	54	40	17	8	34	1.80
4328554--4328751	56	3.7	50	80	12	198	27	20	28	23	1.99
4328657--4328803	50	2.9	49	81	4	150	28	21	25	24	1.99
4336056--4336168	23	4.7	23	70	18	70	68	3	20	7	1.31
4336049--4336099	15	3.3	15	76	15	50	76	1	19	1	0.98
4342880--4343069	26	7.3	26	85	0	254	37	21	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4342880--4343214	52	6.7	52	80	7	368	38	20	16	24	1.92
4342880--4343214	78	4.4	78	80	10	390	38	20	16	24	1.92
4343033--4343114	41	2.0	41	87	0	119	43	13	17	25	1.85
4343074--4343214	26	5.4	26	88	0	201	39	20	16	23	1.92
4342981--4343162	93	2.0	93	85	0	247	40	19	16	23	1.91
4342955--4343188	119	2.0	119	86	0	324	39	19	17	24	1.92
4342932--4343215	145	2.0	145	87	1	417	38	20	16	25	1.92
4346226--4346266	6	6.8	6	94	0	73	17	17	14	51	1.77
4347774--4347928	45	3.5	45	76	3	127	39	14	25	20	1.91
4355149--4355222	30	2.5	30	81	0	85	39	25	12	22	1.89
4365493--4365612	29	4.1	29	85	2	143	23	28	29	19	1.98
4367413--4367469	15	3.5	15	73	17	60	50	1	0	47	1.11
4367401--4367468	34	2.1	32	88	5	100	48	2	0	48	1.16
4371429--4371455	12	2.2	12	100	0	54	40	25	18	14	1.89
4374665--4374689	10	2.5	10	100	0	50	48	0	0	52	1.00
4375142--4375180	3	13.0	3	100	0	78	66	0	0	33	0.92
4385694--4385728	18	1.9	18	88	0	52	71	8	5	14	1.29
4388781--4388820	20	2.0	20	85	5	53	37	2	7	52	1.43
4391124--4391149	13	2.0	13	100	0	52	7	23	30	38	1.83
4392441--4392479	3	13.3	3	94	5	71	69	0	0	30	0.89
4393351--4393386	17	2.2	16	95	5	63	11	2	33	52	1.51
4393906--4394048	44	3.2	44	78	2	160	31	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4402784--4402833	3	17.3	3	91	8	86	70	0	0	30	0.88
4403705--4403740	17	2.2	17	95	5	65	11	5	33	50	1.61
4405010--4405045	14	2.7	13	91	4	54	36	2	0	61	1.11
4405013--4405045	13	2.4	14	90	5	50	36	3	0	60	1.12
4408717--4409468	23	33.0	23	72	7	424	40	25	3	30	1.71
4408717--4409468	46	16.5	46	76	4	501	40	25	3	30	1.71
4408720--4409343	182	3.4	182	92	0	1007	41	25	3	29	1.71
4413161--4413203	21	2.0	21	100	0	86	37	4	18	39	1.72
4415007--4415160	39	3.9	39	93	0	245	40	16	9	33	1.82
4415258--4415342	43	2.0	43	95	0	152	29	28	17	24	1.97

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