genome.fa.s32.2.7.7.80.10.50.1000.27.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   

This is table  27  of  33  ( 3877 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)
3905721--3905760	16	2.5	16	88	8	55	87	7	5	0	0.66
3908260--3908312	20	2.6	20	96	3	97	41	11	16	30	1.84
3908368--3908505	51	2.7	50	88	2	195	28	15	13	42	1.85
3911604--3912404	164	4.9	167	80	6	658	30	10	9	49	1.68
3912597--3912626	14	2.1	15	93	6	53	43	3	0	53	1.17
3912594--3912645	14	3.8	13	76	16	52	32	3	0	63	1.12
3914257--3914798	156	3.5	154	81	6	585	25	17	20	36	1.94
3918057--3918143	41	2.2	39	91	4	138	32	5	13	48	1.66
3920069--3920366	88	3.4	88	84	2	359	24	19	13	42	1.87
3920069--3920317	44	5.7	44	72	17	171	24	19	12	43	1.85
3920772--3920865	30	3.1	30	69	14	84	21	14	14	48	1.80
3921532--3921769	90	2.6	90	82	5	273	29	23	13	33	1.92
3921944--3922133	35	5.4	35	81	3	204	24	24	11	39	1.88
3922113--3922171	26	2.3	26	90	0	91	18	32	15	33	1.92
3922207--3922513	41	7.5	41	76	7	259	16	23	16	42	1.88
3922209--3922430	81	2.7	81	82	6	254	17	23	15	43	1.87
3922209--3922476	122	2.2	122	85	1	349	16	24	16	42	1.88
3922295--3922591	81	3.6	82	81	4	291	16	24	16	42	1.88
3922260--3922515	122	2.1	122	83	3	309	16	24	17	42	1.89
3922298--3922544	41	6.1	39	76	6	127	15	23	17	42	1.88
3922755--3922913	86	1.9	85	82	1	201	18	20	14	47	1.83
3923867--3923933	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3923887--3923911	13	1.9	13	100	0	50	36	16	16	32	1.90
3923974--3923998	13	1.9	13	100	0	50	32	16	16	36	1.90
3924007--3924126	52	2.3	52	95	0	213	35	19	17	28	1.94
3927795--3928330	166	3.2	165	82	8	604	28	10	9	51	1.67
3927896--3928445	166	3.3	167	81	6	397	30	10	8	50	1.67
3929006--3929079	20	3.7	20	81	3	103	35	13	20	31	1.91
3929024--3929099	21	3.7	21	82	3	109	40	11	18	28	1.86
3929006--3929099	41	2.3	41	100	0	188	38	12	19	29	1.89
3933475--3933548	20	3.7	20	81	3	103	35	13	20	31	1.91
3933493--3933568	21	3.7	21	82	3	109	40	11	18	28	1.86
3933475--3933568	41	2.3	41	100	0	188	38	12	19	29	1.89
3933607--3933632	13	2.0	13	100	0	52	38	15	15	30	1.88
3938438--3938855	162	2.6	162	82	5	499	30	8	9	51	1.63
3939553--3939594	21	1.9	21	85	9	57	45	11	7	35	1.69
3939662--3939700	20	1.9	21	89	5	62	33	20	15	30	1.94
3939690--3939744	19	2.8	20	77	5	67	27	14	16	41	1.87
3939799--3939854	20	2.7	21	88	2	78	32	12	16	39	1.85
3940284--3940370	36	2.6	34	78	10	97	29	16	25	28	1.96
3941038--3941085	22	2.2	22	100	0	96	18	6	14	60	1.55
3946329--3946388	30	2.0	29	84	9	77	15	23	6	55	1.64
3947605--3947696	46	2.0	46	95	0	166	34	4	39	21	1.73
3948357--3948420	33	2.0	32	87	3	92	34	17	7	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3950980--3951424	227	2.0	227	98	0	856	33	15	13	37	1.86
3960190--3960238	15	3.2	15	72	16	55	40	40	0	18	1.50
3963863--3963890	13	2.2	13	100	0	56	32	17	21	28	1.96
3963953--3963977	13	1.9	13	100	0	50	32	16	16	36	1.90
3964208--3964568	36	10.8	35	79	14	352	34	12	32	20	1.90
3964282--3964720	31	13.9	31	77	12	292	29	14	33	23	1.94
3964246--3964576	67	5.0	66	88	6	438	33	12	33	20	1.90
3964246--3964505	132	2.0	131	90	3	407	32	13	34	20	1.91
3964274--3964744	65	7.5	60	81	11	251	29	14	32	23	1.94
3964560--3964744	29	6.3	29	82	7	203	23	17	30	29	1.97
3964575--3964750	57	3.0	57	82	8	219	22	17	30	28	1.97
3964566--3964748	30	6.2	30	82	6	212	24	16	29	29	1.97
3965563--3965713	55	2.8	53	83	3	187	35	15	23	25	1.94
3965568--3966078	43	10.8	49	78	11	505	32	16	24	26	1.96
3965614--3966078	92	5.0	92	91	1	734	32	16	24	26	1.96
3966086--3966244	32	4.8	33	84	9	193	18	18	33	28	1.95
3966086--3966244	65	2.4	65	85	8	207	18	18	33	28	1.95
3966249--3966609	36	10.8	34	77	16	344	33	12	33	20	1.90
3966324--3966785	30	14.7	31	77	12	299	28	14	33	23	1.94
3966279--3966671	67	6.0	64	82	9	374	31	13	34	21	1.91
3966279--3966617	131	2.6	130	82	10	386	33	12	34	20	1.89
3966229--3966608	101	3.8	102	77	14	360	32	12	34	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3966249--3966616	64	5.5	67	83	9	352	33	12	33	20	1.89
3966616--3966791	57	3.0	57	83	8	228	22	17	31	28	1.97
3968222--3968255	16	2.1	16	94	5	59	0	0	14	85	0.60
3968222--3968283	11	5.5	11	74	12	54	0	6	9	83	0.79
3968234--3968286	12	4.5	12	79	11	56	0	7	7	84	0.76
3968234--3968284	15	3.6	14	76	10	50	0	7	5	86	0.71
3982049--3982178	52	2.5	52	94	1	224	30	17	16	34	1.93
3982261--3982285	13	1.9	13	100	0	50	32	16	16	36	1.90
3982462--3982570	32	3.4	32	89	1	164	16	18	34	30	1.93
3982618--3983094	31	14.9	31	76	15	270	29	13	33	23	1.93
3982561--3982942	101	3.8	101	78	17	398	31	12	35	20	1.89
3982618--3982950	67	5.0	66	87	7	451	31	12	35	20	1.89
3982915--3983118	30	7.0	29	81	6	198	25	17	30	27	1.97
3982880--3983118	30	8.0	30	78	9	186	26	16	30	26	1.97
3982934--3983122	57	3.2	59	79	9	206	24	16	29	29	1.97
3982959--3983127	88	1.9	86	83	5	214	23	15	30	30	1.96
3983996--3984826	92	9.0	92	90	1	1295	31	17	25	25	1.97
3984935--3985266	67	5.0	66	89	6	476	31	12	36	19	1.89
3984897--3985266	132	2.8	132	85	10	493	33	12	35	19	1.89
3985196--3985320	29	4.1	30	78	11	128	29	13	32	24	1.93
3985196--3985405	30	7.0	30	75	12	137	26	15	30	28	1.96
3985250--3985409	57	2.7	59	79	9	166	23	15	28	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3992271--3992743	28	16.2	28	79	7	399	28	30	17	23	1.97
3992304--3992724	171	2.4	170	82	5	484	28	30	18	22	1.97
3993104--3993155	25	2.1	25	96	0	95	3	17	25	53	1.60
4005164--4005217	20	2.7	20	85	2	63	37	11	18	33	1.86
4015567--4015617	19	2.5	20	81	9	59	45	7	13	33	1.73
4015684--4015811	52	2.5	52	82	3	161	31	17	10	41	1.82
4015673--4015795	51	2.4	51	86	1	165	30	17	10	40	1.84
4016318--4016378	20	3.0	21	78	4	70	40	11	16	31	1.84
4021793--4021818	13	2.0	13	100	0	52	30	15	15	38	1.88
4021773--4021836	32	2.0	33	87	3	94	29	14	14	42	1.84
4023890--4023932	20	2.1	20	82	4	50	9	27	44	18	1.80
4024364--4024402	13	3.0	13	96	0	69	35	15	17	30	1.91
4028272--4028316	21	2.1	21	84	8	56	22	20	4	53	1.63
4038682--4038736	20	2.8	20	85	0	74	41	14	12	30	1.83
4039463--4039674	28	7.6	28	85	2	273	24	16	29	28	1.97
4039463--4039674	84	2.5	84	87	3	302	24	16	29	28	1.97
4049277--4049313	18	2.1	18	100	0	74	21	21	18	37	1.94
4054812--4054885	20	3.7	20	80	7	62	33	12	14	39	1.84
4058394--4058418	13	1.9	13	100	0	50	32	20	16	32	1.94
4058426--4058524	42	2.4	42	96	0	180	29	17	15	38	1.90
4060857--4061000	51	2.8	51	70	10	123	31	21	11	34	1.90
4060987--4061060	28	2.6	28	93	0	130	20	32	21	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4061012--4061189	79	2.3	79	85	3	225	24	26	16	31	1.97
4067254--4068046	61	13.4	61	80	9	742	26	25	20	27	1.99
4067253--4068038	123	6.7	118	81	8	677	26	25	20	27	1.99
4067405--4068046	55	11.1	55	80	9	577	26	25	19	27	1.99
4068045--4068158	45	2.7	43	81	11	135	19	29	11	39	1.87
4068178--4068277	35	2.9	35	92	1	157	24	25	16	35	1.95
4068245--4068347	41	2.5	41	80	7	120	17	29	10	42	1.83
4068753--4068780	8	3.5	8	100	0	56	21	0	10	67	1.20
4068949--4069107	20	7.8	20	68	20	107	25	16	15	42	1.87
4068992--4069016	13	1.9	13	100	0	50	36	16	8	40	1.77

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